I: pbuilder: network access will be disabled during build I: Current time: Thu Jul 9 05:06:38 +14 2020 I: pbuilder-time-stamp: 1594220798 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [kmer_0~20150903+r2013-6.dsc] I: copying [./kmer_0~20150903+r2013.orig.tar.gz] I: copying [./kmer_0~20150903+r2013-6.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/var/lib/jenkins/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Tue Aug 28 09:29:44 2018 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tillea@rki.de" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./kmer_0~20150903+r2013-6.dsc dpkg-source: info: extracting kmer in kmer-0~20150903+r2013 dpkg-source: info: unpacking kmer_0~20150903+r2013.orig.tar.gz dpkg-source: info: unpacking kmer_0~20150903+r2013-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying allow-freebsd-build.patch dpkg-source: info: applying atac-helper-script-paths.patch dpkg-source: info: applying atac-readme.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying linux-cflags.patch dpkg-source: info: applying fix_wrong_evaluation_order.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/5368/tmp/hooks/D01_modify_environment starting debug: Running on codethink-sled10-arm64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/5368/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/5368/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="0" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.0.3(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/var/lib/jenkins HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=5368 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.Yy62tAHgRH/pbuilderrc_iU7p --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.Yy62tAHgRH/b2 --logfile b2/build.log kmer_0~20150903+r2013-6.dsc' SUDO_GID=117 SUDO_UID=110 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root USERNAME=root _='I: set' http_proxy=http://192.168.101.16:3128 I: uname -a Linux i-capture-the-hostname 4.4.0-184-generic #214-Ubuntu SMP Wed Jun 3 11:41:03 UTC 2020 aarch64 GNU/Linux I: ls -l /bin total 4928 -rwxr-xr-x 1 root root 1216928 Apr 18 2019 bash -rwxr-xr-x 3 root root 34808 Jul 11 2019 bunzip2 -rwxr-xr-x 3 root root 34808 Jul 11 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep -rwxr-xr-x 3 root root 34808 Jul 11 2019 bzip2 -rwxr-xr-x 1 root root 14264 Jul 11 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore -rwxr-xr-x 1 root root 35576 Mar 1 2019 cat -rwxr-xr-x 1 root root 60256 Mar 1 2019 chgrp -rwxr-xr-x 1 root root 56096 Mar 1 2019 chmod -rwxr-xr-x 1 root root 64368 Mar 1 2019 chown -rwxr-xr-x 1 root root 134632 Mar 1 2019 cp -rwxr-xr-x 1 root root 129536 Jan 18 2019 dash -rwxr-xr-x 1 root root 97136 Mar 1 2019 date -rwxr-xr-x 1 root root 76736 Mar 1 2019 dd -rwxr-xr-x 1 root root 93752 Mar 1 2019 df -rwxr-xr-x 1 root root 138848 Mar 1 2019 dir -rwxr-xr-x 1 root root 75984 Jan 10 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname -rwxr-xr-x 1 root root 31368 Mar 1 2019 echo -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep -rwxr-xr-x 1 root root 27256 Mar 1 2019 false -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep -rwxr-xr-x 1 root root 68792 Jan 10 2019 findmnt -rwsr-xr-x 1 root root 34824 Apr 23 09:38 fusermount -rwxr-xr-x 1 root root 174304 Jan 8 2019 grep -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe -rwxr-xr-x 1 root root 89656 Jan 6 2019 gzip -rwxr-xr-x 1 root root 18440 Sep 27 2018 hostname -rwxr-xr-x 1 root root 64472 Mar 1 2019 ln -rwxr-xr-x 1 root root 52544 Jul 27 2018 login -rwxr-xr-x 1 root root 138848 Mar 1 2019 ls -rwxr-xr-x 1 root root 108552 Jan 10 2019 lsblk -rwxr-xr-x 1 root root 76840 Mar 1 2019 mkdir -rwxr-xr-x 1 root root 64480 Mar 1 2019 mknod -rwxr-xr-x 1 root root 39736 Mar 1 2019 mktemp -rwxr-xr-x 1 root root 38840 Jan 10 2019 more -rwsr-xr-x 1 root root 47112 Jan 10 2019 mount -rwxr-xr-x 1 root root 14344 Jan 10 2019 mountpoint -rwxr-xr-x 1 root root 138736 Mar 1 2019 mv lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 35560 Mar 1 2019 pwd lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash -rwxr-xr-x 1 root root 43712 Mar 1 2019 readlink -rwxr-xr-x 1 root root 68440 Mar 1 2019 rm -rwxr-xr-x 1 root root 39624 Mar 1 2019 rmdir -rwxr-xr-x 1 root root 19144 Jan 22 2019 run-parts -rwxr-xr-x 1 root root 114016 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Jul 9 05:06 sh -> bash lrwxrwxrwx 1 root root 4 Jul 8 22:26 sh.distrib -> dash -rwxr-xr-x 1 root root 31384 Mar 1 2019 sleep -rwxr-xr-x 1 root root 72480 Mar 1 2019 stty -rwsr-xr-x 1 root root 59424 Jan 10 2019 su -rwxr-xr-x 1 root root 31416 Mar 1 2019 sync -rwxr-xr-x 1 root root 449416 Apr 24 2019 tar -rwxr-xr-x 1 root root 10560 Jan 22 2019 tempfile -rwxr-xr-x 1 root root 88968 Mar 1 2019 touch -rwxr-xr-x 1 root root 27256 Mar 1 2019 true -rwxr-xr-x 1 root root 14264 Apr 23 09:38 ulockmgr_server -rwsr-xr-x 1 root root 30728 Jan 10 2019 umount -rwxr-xr-x 1 root root 31384 Mar 1 2019 uname -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress -rwxr-xr-x 1 root root 138848 Mar 1 2019 vdir -rwxr-xr-x 1 root root 34824 Jan 10 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 22 2019 which lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew I: user script /srv/workspace/pbuilder/5368/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 11~), dh-exec, dh-python, python-all-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19168 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on dh-exec; however: Package dh-exec is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python-all-dev; however: Package python-all-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} debhelper{a} dh-autoreconf{a} dh-exec{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbsd0{a} libcroco3{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libicu63{a} libmagic-mgc{a} libmagic1{a} libmpdec2{a} libncurses6{a} libpipeline1{a} libpython-all-dev{a} libpython-dev{a} libpython-stdlib{a} libpython2-dev{a} libpython2-stdlib{a} libpython2.7{a} libpython2.7-dev{a} libpython2.7-minimal{a} libpython2.7-stdlib{a} libpython3-stdlib{a} libpython3.7-minimal{a} libpython3.7-stdlib{a} libreadline7{a} libsigsegv2{a} libssl1.1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} mime-support{a} po-debconf{a} python{a} python-all{a} python-all-dev{a} python-dev{a} python-minimal{a} python2{a} python2-dev{a} python2-minimal{a} python2.7{a} python2.7-dev{a} python2.7-minimal{a} python3{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3.7{a} python3.7-minimal{a} readline-common{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 71 newly installed, 0 to remove and 0 not upgraded. Need to get 61.8 MB of archives. After unpacking 173 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main arm64 libbsd0 arm64 0.9.1-2 [97.4 kB] Get: 2 http://deb.debian.org/debian buster/main arm64 bsdmainutils arm64 11.1.2+b1 [185 kB] Get: 3 http://deb.debian.org/debian buster/main arm64 libuchardet0 arm64 0.0.6-3 [65.0 kB] Get: 4 http://deb.debian.org/debian buster/main arm64 groff-base arm64 1.22.4-3 [869 kB] Get: 5 http://deb.debian.org/debian buster/main arm64 libpipeline1 arm64 1.5.1-2 [29.8 kB] Get: 6 http://deb.debian.org/debian buster/main arm64 man-db arm64 2.8.5-2 [1258 kB] Get: 7 http://deb.debian.org/debian buster/main arm64 libpython2.7-minimal arm64 2.7.16-2+deb10u1 [395 kB] Get: 8 http://deb.debian.org/debian buster/main arm64 python2.7-minimal arm64 2.7.16-2+deb10u1 [1292 kB] Get: 9 http://deb.debian.org/debian buster/main arm64 python2-minimal arm64 2.7.16-1 [41.4 kB] Get: 10 http://deb.debian.org/debian buster/main arm64 python-minimal arm64 2.7.16-1 [21.0 kB] Get: 11 http://deb.debian.org/debian buster/main arm64 libssl1.1 arm64 1.1.1d-0+deb10u3 [1382 kB] Get: 12 http://deb.debian.org/debian buster/main arm64 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main arm64 libexpat1 arm64 2.2.6-2+deb10u1 [85.4 kB] Get: 14 http://deb.debian.org/debian buster/main arm64 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main arm64 libreadline7 arm64 7.0-5 [134 kB] Get: 16 http://deb.debian.org/debian buster/main arm64 libpython2.7-stdlib arm64 2.7.16-2+deb10u1 [1890 kB] Get: 17 http://deb.debian.org/debian buster/main arm64 python2.7 arm64 2.7.16-2+deb10u1 [305 kB] Get: 18 http://deb.debian.org/debian buster/main arm64 libpython2-stdlib arm64 2.7.16-1 [20.8 kB] Get: 19 http://deb.debian.org/debian buster/main arm64 libpython-stdlib arm64 2.7.16-1 [20.8 kB] Get: 20 http://deb.debian.org/debian buster/main arm64 python2 arm64 2.7.16-1 [41.6 kB] Get: 21 http://deb.debian.org/debian buster/main arm64 python arm64 2.7.16-1 [22.8 kB] Get: 22 http://deb.debian.org/debian buster/main arm64 libpython3.7-minimal arm64 3.7.3-2+deb10u1 [588 kB] Get: 23 http://deb.debian.org/debian buster/main arm64 python3.7-minimal arm64 3.7.3-2+deb10u1 [1404 kB] Get: 24 http://deb.debian.org/debian buster/main arm64 python3-minimal arm64 3.7.3-1 [36.6 kB] Get: 25 http://deb.debian.org/debian buster/main arm64 libmpdec2 arm64 2.4.2-2 [77.7 kB] Get: 26 http://deb.debian.org/debian buster/main arm64 libpython3.7-stdlib arm64 3.7.3-2+deb10u1 [1640 kB] Get: 27 http://deb.debian.org/debian buster/main arm64 python3.7 arm64 3.7.3-2+deb10u1 [330 kB] Get: 28 http://deb.debian.org/debian buster/main arm64 libpython3-stdlib arm64 3.7.3-1 [20.0 kB] Get: 29 http://deb.debian.org/debian buster/main arm64 python3 arm64 3.7.3-1 [61.5 kB] Get: 30 http://deb.debian.org/debian buster/main arm64 sensible-utils all 0.0.12 [15.8 kB] Get: 31 http://deb.debian.org/debian buster/main arm64 libmagic-mgc arm64 1:5.35-4+deb10u1 [242 kB] Get: 32 http://deb.debian.org/debian buster/main arm64 libmagic1 arm64 1:5.35-4+deb10u1 [115 kB] Get: 33 http://deb.debian.org/debian buster/main arm64 file arm64 1:5.35-4+deb10u1 [66.4 kB] Get: 34 http://deb.debian.org/debian buster/main arm64 gettext-base arm64 0.19.8.1-9 [120 kB] Get: 35 http://deb.debian.org/debian buster/main arm64 libsigsegv2 arm64 2.12-2 [32.3 kB] Get: 36 http://deb.debian.org/debian buster/main arm64 m4 arm64 1.4.18-2 [198 kB] Get: 37 http://deb.debian.org/debian buster/main arm64 autoconf all 2.69-11 [341 kB] Get: 38 http://deb.debian.org/debian buster/main arm64 autotools-dev all 20180224.1 [77.0 kB] Get: 39 http://deb.debian.org/debian buster/main arm64 automake all 1:1.16.1-4 [771 kB] Get: 40 http://deb.debian.org/debian buster/main arm64 autopoint all 0.19.8.1-9 [434 kB] Get: 41 http://deb.debian.org/debian buster/main arm64 libtool all 2.4.6-9 [547 kB] Get: 42 http://deb.debian.org/debian buster/main arm64 dh-autoreconf all 19 [16.9 kB] Get: 43 http://deb.debian.org/debian buster/main arm64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 44 http://deb.debian.org/debian buster/main arm64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 45 http://deb.debian.org/debian buster/main arm64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 46 http://deb.debian.org/debian buster/main arm64 libelf1 arm64 0.176-1.1 [160 kB] Get: 47 http://deb.debian.org/debian buster/main arm64 dwz arm64 0.12-3 [71.7 kB] Get: 48 http://deb.debian.org/debian buster/main arm64 libglib2.0-0 arm64 2.58.3-2+deb10u2 [1185 kB] Get: 49 http://deb.debian.org/debian buster/main arm64 libicu63 arm64 63.1-6+deb10u1 [8151 kB] Get: 50 http://deb.debian.org/debian buster/main arm64 libxml2 arm64 2.9.4+dfsg1-7+b3 [623 kB] Get: 51 http://deb.debian.org/debian buster/main arm64 libcroco3 arm64 0.6.12-3 [140 kB] Get: 52 http://deb.debian.org/debian buster/main arm64 libncurses6 arm64 6.1+20181013-2+deb10u2 [92.6 kB] Get: 53 http://deb.debian.org/debian buster/main arm64 gettext arm64 0.19.8.1-9 [1261 kB] Get: 54 http://deb.debian.org/debian buster/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 55 http://deb.debian.org/debian buster/main arm64 po-debconf all 1.0.21 [248 kB] Get: 56 http://deb.debian.org/debian buster/main arm64 debhelper all 12.1.1 [1016 kB] Get: 57 http://deb.debian.org/debian buster/main arm64 dh-exec arm64 0.23.1 [25.9 kB] Get: 58 http://deb.debian.org/debian buster/main arm64 python3-lib2to3 all 3.7.3-1 [76.7 kB] Get: 59 http://deb.debian.org/debian buster/main arm64 python3-distutils all 3.7.3-1 [142 kB] Get: 60 http://deb.debian.org/debian buster/main arm64 dh-python all 3.20190308 [99.3 kB] Get: 61 http://deb.debian.org/debian buster/main arm64 libexpat1-dev arm64 2.2.6-2+deb10u1 [128 kB] Get: 62 http://deb.debian.org/debian buster/main arm64 libpython2.7 arm64 2.7.16-2+deb10u1 [958 kB] Get: 63 http://deb.debian.org/debian buster/main arm64 libpython2.7-dev arm64 2.7.16-2+deb10u1 [31.5 MB] Get: 64 http://deb.debian.org/debian buster/main arm64 libpython2-dev arm64 2.7.16-1 [20.9 kB] Get: 65 http://deb.debian.org/debian buster/main arm64 libpython-dev arm64 2.7.16-1 [20.9 kB] Get: 66 http://deb.debian.org/debian buster/main arm64 libpython-all-dev arm64 2.7.16-1 [1064 B] Get: 67 http://deb.debian.org/debian buster/main arm64 python-all arm64 2.7.16-1 [1044 B] Get: 68 http://deb.debian.org/debian buster/main arm64 python2.7-dev arm64 2.7.16-2+deb10u1 [296 kB] Get: 69 http://deb.debian.org/debian buster/main arm64 python2-dev arm64 2.7.16-1 [1216 B] Get: 70 http://deb.debian.org/debian buster/main arm64 python-dev arm64 2.7.16-1 [1192 B] Get: 71 http://deb.debian.org/debian buster/main arm64 python-all-dev arm64 2.7.16-1 [1068 B] Fetched 61.8 MB in 3s (18.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:arm64. 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Unpacking libuchardet0:arm64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_arm64.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../04-libpipeline1_1.5.1-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_arm64.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package libpython2.7-minimal:arm64. Preparing to unpack .../06-libpython2.7-minimal_2.7.16-2+deb10u1_arm64.deb ... Unpacking libpython2.7-minimal:arm64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../07-python2.7-minimal_2.7.16-2+deb10u1_arm64.deb ... Unpacking python2.7-minimal (2.7.16-2+deb10u1) ... Selecting previously unselected package python2-minimal. 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Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libcroco3:arm64 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up libpython3-stdlib:arm64 (3.7.3-1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3.7 (3.7.3-2+deb10u1) ... Setting up libpython2.7:arm64 (2.7.16-2+deb10u1) ... Setting up libpython2.7-dev:arm64 (2.7.16-2+deb10u1) ... Setting up gettext (0.19.8.1-9) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libpython2-stdlib:arm64 (2.7.16-1) ... Setting up python3 (3.7.3-1) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up python2 (2.7.16-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libpython-stdlib:arm64 (2.7.16-1) ... Setting up libpython2-dev:arm64 (2.7.16-1) ... Setting up python3-lib2to3 (3.7.3-1) ... Setting up python (2.7.16-1) ... Setting up python2.7-dev (2.7.16-2+deb10u1) ... Setting up python3-distutils (3.7.3-1) ... Setting up dh-python (3.20190308) ... Setting up python2-dev (2.7.16-1) ... Setting up po-debconf (1.0.21) ... Setting up python-all (2.7.16-1) ... Setting up libpython-dev:arm64 (2.7.16-1) ... Setting up python-dev (2.7.16-1) ... Setting up libpython-all-dev:arm64 (2.7.16-1) ... Setting up python-all-dev (2.7.16-1) ... Setting up dh-autoreconf (19) ... Setting up debhelper (12.1.1) ... Setting up dh-exec (0.23.1) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/kmer-0~20150903+r2013/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package kmer dpkg-buildpackage: info: source version 0~20150903+r2013-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Liubov Chuprikova dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 fakeroot debian/rules clean dh clean --with python2 debian/rules override_dh_auto_clean make[1]: Entering directory '/build/kmer-0~20150903+r2013' /usr/bin/make real-clean make[2]: Entering directory '/build/kmer-0~20150903+r2013' rm -f ESTmapper/*.o ESTmapper/mergeCounts ESTmapper/terminate ESTmapper/Make.depends ESTmapper/mergeCounts.C.d ESTmapper/terminate.C.d ESTmapper/mergeCounts ESTmapper/terminate rm -f atac-driver/libatac/*.o atac-driver/libatac/*~ atac-driver/libatac/libatac.a atac-driver/libatac/Make.depends atac-driver/libatac/atacFeature.C.d atac-driver/libatac/atacFeatureList.C.d atac-driver/libatac/atacFile.C.d atac-driver/libatac/atacFileStreamMerge.C.d atac-driver/libatac/atacMatch.C.d atac-driver/libatac/atacMatchList.C.d atac-driver/libatac/atacMatchOrder.C.d rm -f atac-driver/alignOverlap/*.o atac-driver/alignOverlap/*~ atac-driver/alignOverlap/core atac-driver/alignOverlap/overlap-process1.C atac-driver/alignOverlap/overlap-process2.C atac-driver/alignOverlap/overlap atac-driver/alignOverlap/Make.depends atac-driver/alignOverlap/overlap.C.d atac-driver/alignOverlap/overlap-sort.C.d atac-driver/alignOverlap/overlap-printAnno.C.d atac-driver/alignOverlap/overlap-find.C.d rm -f atac-driver/gapShifter/*.o atac-driver/gapShifter/*~ atac-driver/gapShifter/core atac-driver/gapShifter/gapShifter atac-driver/gapShifter/extractSequence atac-driver/gapShifter/extractUnmapped atac-driver/gapShifter/coalesceMatches atac-driver/gapShifter/correctGaps atac-driver/gapShifter/testAtac atac-driver/gapShifter/cleanAtac atac-driver/gapShifter/projectFeatures atac-driver/gapShifter/Make.depends atac-driver/gapShifter/gapShifter.C.d atac-driver/gapShifter/extractSequence.C.d atac-driver/gapShifter/extractUnmapped.C.d atac-driver/gapShifter/coalesceMatches.C.d atac-driver/gapShifter/correctGaps.C.d atac-driver/gapShifter/testAtac.C.d atac-driver/gapShifter/cleanAtac.C.d atac-driver/gapShifter/projectFeatures.C.d rm -f atac-driver/lengthFilter/*.o atac-driver/lengthFilter/*~ atac-driver/lengthFilter/core atac-driver/lengthFilter/lengthFilter atac-driver/lengthFilter/Make.depends atac-driver/lengthFilter/lengthFilter.C.d rm -f atac-driver/matchExtender/*.o atac-driver/matchExtender/*~ atac-driver/matchExtender/core atac-driver/matchExtender/matchExtender atac-driver/matchExtender/Make.depends atac-driver/matchExtender/matchExtender.C.d atac-driver/matchExtender/matchExtender-dump.C.d atac-driver/matchExtender/matchExtender-func.C.d rm -f atac-driver/mismatchCounter/*.o atac-driver/mismatchCounter/*~ atac-driver/mismatchCounter/core atac-driver/mismatchCounter/mismatchCounter atac-driver/mismatchCounter/Make.depends atac-driver/mismatchCounter/mismatchCounter.C.d rm -f atac-driver/statsGenerator/*.o atac-driver/statsGenerator/*~ atac-driver/statsGenerator/core atac-driver/statsGenerator/statsGenerator atac-driver/statsGenerator/Make.depends atac-driver/statsGenerator/statsGenerator.C.d rm -f atac-driver/uniqueFilter/*.o atac-driver/uniqueFilter/*~ atac-driver/uniqueFilter/core atac-driver/uniqueFilter/uniqueFilter atac-driver/uniqueFilter/Make.depends atac-driver/uniqueFilter/uniqueFilter.C.d rm -f atac-driver/clumpMaker/*.o atac-driver/clumpMaker/*~ atac-driver/clumpMaker/core atac-driver/clumpMaker/clumpMaker atac-driver/clumpMaker/Make.depends atac-driver/clumpMaker/clumpMaker.C.d rm -f atac-driver/chainer/*.o atac-driver/chainer/*/*.o atac-driver/chainer/*.so atac-driver/chainer/python/*.pyc atac-driver/chainer/localAlignerInterfacemodule.so atac-driver/chainer/halignmodule.so atac-driver/chainer/Make.depends atac-driver/chainer/localalign/GF_ALN_dpaligner.C.d atac-driver/chainer/localalign/GF_ALN_local.C.d atac-driver/chainer/localalign/GF_ALN_overlap.C.d atac-driver/chainer/localalign/GF_ALN_loverlapper.C.d atac-driver/chainer/localalign/GF_ALN_pieceOlap.C.d atac-driver/chainer/localalign/localAlignerInterfacemodule.C.d atac-driver/chainer/halign/halign.C.d atac-driver/chainer/halign/halignmodule.C.d rm -f atac-driver/chimera/*.o atac-driver/chimera/*~ atac-driver/chimera/core atac-driver/chimera/happy-clones-span-clumps atac-driver/chimera/Make.depends atac-driver/chimera/happy-clones-span-clumps.C.d rm -f atac-driver/Make.depends rm -f seatac/*.o seatac/seatac seatac/heavychains seatac/filter-nop.so seatac/filter-heavychains.so seatac/Make.depends seatac/seatac.C.d seatac/configuration.C.d seatac/encodedQuery.C.d seatac/hitMatrix.C.d seatac/thr-search.C.d seatac/thr-loader.C.d seatac/thr-deadlock.C.d seatac/hitMatrix-sort.C.d rm -f leaff/*.o leaff/leaff leaff/Make.depends leaff/leaff.C.d leaff/blocks.C.d leaff/dups.C.d leaff/gc.C.d leaff/partition.C.d leaff/simseq.C.d leaff/stats.C.d rm -f meryl/*.o meryl/meryl meryl/simple meryl/mapMers meryl/mapMers-depth meryl/kmer-mask meryl/libmerylguts.a meryl/Make.depends meryl/args.C.d meryl/binaryOp.C.d meryl/build.C.d meryl/build-threads.C.d meryl/dump.C.d meryl/estimate.C.d meryl/merge.C.d meryl/unaryOp.C.d meryl/meryl.C.d meryl/simple.C.d meryl/mapMers.C.d meryl/mapMers-depth.C.d meryl/kmer-mask.C.d rm -f seagen/*.o seagen/seagen seagen/hitConverter seagen/filterEST seagen/filterMRNA seagen/filterNULL seagen/filtertest seagen/sortHits seagen/filterESTsimple seagen/Make.depends seagen/searchGENOME.C.d seagen/configuration.C.d seagen/encodedQuery.C.d seagen/thr-deadlock.C.d seagen/thr-loader.C.d seagen/thr-search.C.d seagen/thr-output.C.d seagen/hitMatrix-sort.C.d seagen/aHit.C.d seagen/hitConverter.C.d seagen/filterEST.C.d seagen/filterEST-complicated.C.d seagen/filterMRNA.C.d seagen/filterNULL.C.d seagen/sortHits.C.d seagen/filtertest.C.d seagen/hitReader.C.d seagen/hitMatrix.C.d rm -f sim4dbutils/*.o sim4dbutils/cleanPolishes sim4dbutils/fixPolishesIID sim4dbutils/comparePolishes sim4dbutils/convertToAtac sim4dbutils/convertToExtent sim4dbutils/convertPolishes sim4dbutils/detectChimera sim4dbutils/depthOfPolishes sim4dbutils/filterPolishes sim4dbutils/headPolishes sim4dbutils/mappedCoverage sim4dbutils/mergePolishes sim4dbutils/parseSNP sim4dbutils/pickBestPolish sim4dbutils/pickBestPair sim4dbutils/pickUniquePolish sim4dbutils/plotCoverageVsIdentity sim4dbutils/removeDuplicate sim4dbutils/sortPolishes sim4dbutils/summarizePolishes sim4dbutils/uniqPolishes sim4dbutils/vennPolishes sim4dbutils/realignPolishes sim4dbutils/removeRedundant sim4dbutils/reportAlignmentDifferences sim4dbutils/Make.depends sim4dbutils/cleanPolishes.C.d sim4dbutils/fixPolishesIID.C.d sim4dbutils/comparePolishes.C.d sim4dbutils/convertToAtac.C.d sim4dbutils/convertToExtent.C.d sim4dbutils/convertPolishes.C.d sim4dbutils/detectChimera.C.d sim4dbutils/depthOfPolishes.C.d sim4dbutils/filterPolishes.C.d sim4dbutils/headPolishes.C.d sim4dbutils/mappedCoverage.C.d sim4dbutils/mergePolishes.C.d sim4dbutils/parseSNP.C.d sim4dbutils/pickBestPolish.C.d sim4dbutils/pickBestPair.C.d sim4dbutils/pickUniquePolish.C.d sim4dbutils/plotCoverageVsIdentity.C.d sim4dbutils/removeDuplicate.C.d sim4dbutils/sortPolishes.C.d sim4dbutils/summarizePolishes.C.d sim4dbutils/uniqPolishes.C.d sim4dbutils/vennPolishes.C.d sim4dbutils/realignPolishes.C.d sim4dbutils/removeRedundant.C.d sim4dbutils/reportAlignmentDifferences.C.d sim4dbutils/s4p_overlap.C.d rm -f sim4db/*.o sim4db/sim4db sim4db/Make.depends sim4db/sim4th.C.d rm -f snapper/*.o snapper/snapper2 snapper/Make.depends snapper/snapper2.C.d snapper/configuration.C.d snapper/thr-search.C.d snapper/thr-filter.C.d snapper/thr-polish.C.d snapper/thr-polish-dp.C.d snapper/hitMatrix.C.d snapper/hitMatrix-sort.C.d rm -f tapper/*.o tapper/tagger tapper/tapper tapper/tapperconvert tapper/tappermerge tapper/tappersort tapper/tappererrorcorrect tapper/Make.depends tapper/tagger.C.d tapper/tapper.C.d tapper/tapperconvert.C.d tapper/tappermerge.C.d tapper/tappersort.C.d tapper/tappererrorcorrect.C.d rm -f /build/kmer-0~20150903+r2013/libsim4/*.o /build/kmer-0~20150903+r2013/libsim4/sim4core/*.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/*.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libsim4/Make.depends /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/align.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C.d /build/kmer-0~20150903+r2013/libsim4/sim4core/util.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C.d /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C.d rm -f /build/kmer-0~20150903+r2013/libkmer/*.o /build/kmer-0~20150903+r2013/libkmer/existDB /build/kmer-0~20150903+r2013/libkmer/positionDB /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libkmer/Make.depends /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C.d /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C.d /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C.d /build/kmer-0~20150903+r2013/libkmer/existDB-state.C.d /build/kmer-0~20150903+r2013/libkmer/existDB.C.d /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C.d /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C.d /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C.d /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C.d /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C.d /build/kmer-0~20150903+r2013/libkmer/positionDB.C.d /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C.d /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C.d rm -f /build/kmer-0~20150903+r2013/libmeryl/*.o /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libmeryl/Make.depends /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C.d rm -f /build/kmer-0~20150903+r2013/libbio/*.o /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libbio/Make.depends /build/kmer-0~20150903+r2013/libbio/alphabet.c.d /build/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.c.d /build/kmer-0~20150903+r2013/libbio/alphabet-colorspace.c.d /build/kmer-0~20150903+r2013/libbio/halign.c.d /build/kmer-0~20150903+r2013/libbio/reversecomplement.c.d /build/kmer-0~20150903+r2013/libbio/kmer.C.d rm -f /build/kmer-0~20150903+r2013/libseq/*.o /build/kmer-0~20150903+r2013/libseq/test-seqCache /build/kmer-0~20150903+r2013/libseq/test-seqStream /build/kmer-0~20150903+r2013/libseq/test-merStream /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libseq/Make.depends /build/kmer-0~20150903+r2013/libseq/fastaFile.C.d /build/kmer-0~20150903+r2013/libseq/fastaStdin.C.d /build/kmer-0~20150903+r2013/libseq/fastqFile.C.d /build/kmer-0~20150903+r2013/libseq/fastqStdin.C.d /build/kmer-0~20150903+r2013/libseq/seqStore.C.d /build/kmer-0~20150903+r2013/libseq/sffFile.C.d /build/kmer-0~20150903+r2013/libseq/seqFactory.C.d /build/kmer-0~20150903+r2013/libseq/seqCache.C.d /build/kmer-0~20150903+r2013/libseq/seqStream.C.d /build/kmer-0~20150903+r2013/libseq/merStream.C.d /build/kmer-0~20150903+r2013/libseq/test-seqCache.C.d /build/kmer-0~20150903+r2013/libseq/test-seqStream.C.d /build/kmer-0~20150903+r2013/libseq/test-merStream.C.d rm -f /build/kmer-0~20150903+r2013/libutil/mt19937ar/*.o /build/kmer-0~20150903+r2013/libutil/mt19937ar/test.c /build/kmer-0~20150903+r2013/libutil/mt19937ar/diffs /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test /build/kmer-0~20150903+r2013/libutil/mt19937ar/libmt19937ar.a /build/kmer-0~20150903+r2013/libutil/mt19937ar/Make.depends /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c.d /build/kmer-0~20150903+r2013/libutil/mt19937ar/test.c.d /build/kmer-0~20150903+r2013/libutil/mt19937ar/*.o /build/kmer-0~20150903+r2013/libutil/mt19937ar/test.c /build/kmer-0~20150903+r2013/libutil/mt19937ar/diffs /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test rm -f /build/kmer-0~20150903+r2013/libutil/kazlib/*.o /build/kmer-0~20150903+r2013/libutil/kazlib/libkaz.a /build/kmer-0~20150903+r2013/libutil/kazlib/Make.depends /build/kmer-0~20150903+r2013/libutil/kazlib/dict.c.d /build/kmer-0~20150903+r2013/libutil/kazlib/except.c.d /build/kmer-0~20150903+r2013/libutil/kazlib/hash.c.d /build/kmer-0~20150903+r2013/libutil/kazlib/list.c.d /build/kmer-0~20150903+r2013/libutil/kazlib/sfx.c.d rm -f /build/kmer-0~20150903+r2013/libutil/*.o /build/kmer-0~20150903+r2013/libutil/libutil.a /build/kmer-0~20150903+r2013/libutil/Make.depends /build/kmer-0~20150903+r2013/libutil/file.c.d /build/kmer-0~20150903+r2013/libutil/md5.c.d /build/kmer-0~20150903+r2013/libutil/palloc.c.d /build/kmer-0~20150903+r2013/libutil/qsort_mt.c.d /build/kmer-0~20150903+r2013/libutil/util.c.d /build/kmer-0~20150903+r2013/libutil/bigQueue.C.d /build/kmer-0~20150903+r2013/libutil/bitPackedArray.C.d /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C.d /build/kmer-0~20150903+r2013/libutil/fibonacciNumbers.C.d /build/kmer-0~20150903+r2013/libutil/readBuffer.C.d /build/kmer-0~20150903+r2013/libutil/recordFile.C.d /build/kmer-0~20150903+r2013/libutil/speedCounter.C.d /build/kmer-0~20150903+r2013/libutil/sweatShop.C.d rm -f Make.depends Make.compilers make[2]: Leaving directory '/build/kmer-0~20150903+r2013' rm -rf installdir make[1]: Leaving directory '/build/kmer-0~20150903+r2013' dh_clean debian/rules build dh build --with python2 dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/kmer-0~20150903+r2013' /usr/bin/make install \ CLDFLAGS="-Wl,-z,relro -Wl,-z,now" \ CXXLDFLAGS="-Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/build/kmer-0~20150903+r2013' making /build/kmer-0~20150903+r2013/libutil/kazlib/sfx.c.d making /build/kmer-0~20150903+r2013/libutil/kazlib/list.c.d making /build/kmer-0~20150903+r2013/libutil/kazlib/hash.c.d making /build/kmer-0~20150903+r2013/libutil/kazlib/except.c.d making /build/kmer-0~20150903+r2013/libutil/kazlib/dict.c.d gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o -c /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c: In function 'mtRandomGaussian': /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c:166:34: warning: variable 'y2' set but not used [-Wunused-but-set-variable] double x1=0, x2=0, w=0, y1=0, y2=0; ^~ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test.o -c /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test.c gcc -Wl,-z,relro -Wl,-z,now -o /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test.o -pthread -ldl -lm /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test | diff - /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.out > /build/kmer-0~20150903+r2013/libutil/mt19937ar/diffs 2>&1 if test -s /build/kmer-0~20150903+r2013/libutil/mt19937ar/diffs ; then echo 'MT19937: TEST FAILED'; else echo 'MT19937: Test Passed'; fi MT19937: Test Passed touch /build/kmer-0~20150903+r2013/libutil/mt19937ar/test.c /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test | diff - /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.out making /build/kmer-0~20150903+r2013/libutil/mt19937ar/test.c.d making /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c.d making /build/kmer-0~20150903+r2013/libutil/sweatShop.C.d making /build/kmer-0~20150903+r2013/libutil/speedCounter.C.d making /build/kmer-0~20150903+r2013/libutil/recordFile.C.d making /build/kmer-0~20150903+r2013/libutil/readBuffer.C.d making /build/kmer-0~20150903+r2013/libutil/fibonacciNumbers.C.d making /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C.d making /build/kmer-0~20150903+r2013/libutil/bitPackedArray.C.d making /build/kmer-0~20150903+r2013/libutil/bigQueue.C.d making /build/kmer-0~20150903+r2013/libutil/util.c.d making /build/kmer-0~20150903+r2013/libutil/qsort_mt.c.d making /build/kmer-0~20150903+r2013/libutil/palloc.c.d making /build/kmer-0~20150903+r2013/libutil/md5.c.d making /build/kmer-0~20150903+r2013/libutil/file.c.d making /build/kmer-0~20150903+r2013/libseq/test-merStream.C.d making /build/kmer-0~20150903+r2013/libseq/test-seqStream.C.d making /build/kmer-0~20150903+r2013/libseq/test-seqCache.C.d making /build/kmer-0~20150903+r2013/libseq/merStream.C.d making /build/kmer-0~20150903+r2013/libseq/seqStream.C.d making /build/kmer-0~20150903+r2013/libseq/seqCache.C.d making /build/kmer-0~20150903+r2013/libseq/seqFactory.C.d making /build/kmer-0~20150903+r2013/libseq/sffFile.C.d making /build/kmer-0~20150903+r2013/libseq/seqStore.C.d making /build/kmer-0~20150903+r2013/libseq/fastqStdin.C.d making /build/kmer-0~20150903+r2013/libseq/fastqFile.C.d making /build/kmer-0~20150903+r2013/libseq/fastaStdin.C.d making /build/kmer-0~20150903+r2013/libseq/fastaFile.C.d making /build/kmer-0~20150903+r2013/libbio/kmer.C.d making /build/kmer-0~20150903+r2013/libbio/reversecomplement.c.d making /build/kmer-0~20150903+r2013/libbio/halign.c.d making /build/kmer-0~20150903+r2013/libbio/alphabet-colorspace.c.d making /build/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.c.d making /build/kmer-0~20150903+r2013/libbio/alphabet.c.d making /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C.d making /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C.d making /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C.d making /build/kmer-0~20150903+r2013/libkmer/positionDB.C.d making /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C.d making /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C.d making /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C.d making /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C.d making /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C.d making /build/kmer-0~20150903+r2013/libkmer/existDB.C.d making /build/kmer-0~20150903+r2013/libkmer/existDB-state.C.d making /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C.d making /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C.d making /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/util.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/align.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C.d making /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C.d making tapper/tappererrorcorrect.C.d making tapper/tappersort.C.d making tapper/tappermerge.C.d making tapper/tapperconvert.C.d making tapper/tapper.C.d making tapper/tagger.C.d making snapper/hitMatrix-sort.C.d making snapper/hitMatrix.C.d making snapper/thr-polish-dp.C.d making snapper/thr-polish.C.d making snapper/thr-filter.C.d making snapper/thr-search.C.d making snapper/configuration.C.d making snapper/snapper2.C.d making sim4db/sim4th.C.d making sim4dbutils/s4p_overlap.C.d making sim4dbutils/reportAlignmentDifferences.C.d making sim4dbutils/removeRedundant.C.d making sim4dbutils/realignPolishes.C.d making sim4dbutils/vennPolishes.C.d making sim4dbutils/uniqPolishes.C.d making sim4dbutils/summarizePolishes.C.d making sim4dbutils/sortPolishes.C.d making sim4dbutils/removeDuplicate.C.d making sim4dbutils/plotCoverageVsIdentity.C.d making sim4dbutils/pickUniquePolish.C.d making sim4dbutils/pickBestPair.C.d making sim4dbutils/pickBestPolish.C.d making sim4dbutils/parseSNP.C.d making sim4dbutils/mergePolishes.C.d making sim4dbutils/mappedCoverage.C.d making sim4dbutils/headPolishes.C.d making sim4dbutils/filterPolishes.C.d making sim4dbutils/depthOfPolishes.C.d making sim4dbutils/detectChimera.C.d making sim4dbutils/convertPolishes.C.d making sim4dbutils/convertToExtent.C.d making sim4dbutils/convertToAtac.C.d making sim4dbutils/comparePolishes.C.d making sim4dbutils/fixPolishesIID.C.d making sim4dbutils/cleanPolishes.C.d making seagen/hitMatrix.C.d making seagen/hitReader.C.d making seagen/filtertest.C.d making seagen/sortHits.C.d making seagen/filterNULL.C.d making seagen/filterMRNA.C.d making seagen/filterEST-complicated.C.d making seagen/filterEST.C.d making seagen/hitConverter.C.d making seagen/aHit.C.d making seagen/hitMatrix-sort.C.d making seagen/thr-output.C.d making seagen/thr-search.C.d making seagen/thr-loader.C.d making seagen/thr-deadlock.C.d making seagen/encodedQuery.C.d making seagen/configuration.C.d making seagen/searchGENOME.C.d making meryl/kmer-mask.C.d making meryl/mapMers-depth.C.d making meryl/mapMers.C.d making meryl/simple.C.d making meryl/meryl.C.d making meryl/unaryOp.C.d making meryl/merge.C.d making meryl/estimate.C.d making meryl/dump.C.d making meryl/build-threads.C.d making meryl/build.C.d making meryl/binaryOp.C.d making meryl/args.C.d making leaff/stats.C.d making leaff/simseq.C.d making leaff/partition.C.d making leaff/gc.C.d making leaff/dups.C.d making leaff/blocks.C.d making leaff/leaff.C.d making seatac/hitMatrix-sort.C.d making seatac/thr-deadlock.C.d making seatac/thr-loader.C.d making seatac/thr-search.C.d making seatac/hitMatrix.C.d making seatac/encodedQuery.C.d making seatac/configuration.C.d making seatac/seatac.C.d making atac-driver/chimera/happy-clones-span-clumps.C.d making atac-driver/chainer/halign/halignmodule.C.d making atac-driver/chainer/halign/halign.C.d making atac-driver/chainer/localalign/localAlignerInterfacemodule.C.d making atac-driver/chainer/localalign/GF_ALN_pieceOlap.C.d making atac-driver/chainer/localalign/GF_ALN_loverlapper.C.d making atac-driver/chainer/localalign/GF_ALN_overlap.C.d making atac-driver/chainer/localalign/GF_ALN_local.C.d making atac-driver/chainer/localalign/GF_ALN_dpaligner.C.d making atac-driver/clumpMaker/clumpMaker.C.d making atac-driver/uniqueFilter/uniqueFilter.C.d making atac-driver/statsGenerator/statsGenerator.C.d making atac-driver/mismatchCounter/mismatchCounter.C.d making atac-driver/matchExtender/matchExtender-func.C.d making atac-driver/matchExtender/matchExtender-dump.C.d making atac-driver/matchExtender/matchExtender.C.d making atac-driver/lengthFilter/lengthFilter.C.d making atac-driver/gapShifter/projectFeatures.C.d making atac-driver/gapShifter/cleanAtac.C.d making atac-driver/gapShifter/testAtac.C.d making atac-driver/gapShifter/correctGaps.C.d making atac-driver/gapShifter/coalesceMatches.C.d making atac-driver/gapShifter/extractUnmapped.C.d making atac-driver/gapShifter/extractSequence.C.d making atac-driver/gapShifter/gapShifter.C.d making atac-driver/alignOverlap/overlap-find.C.d making atac-driver/alignOverlap/overlap-printAnno.C.d making atac-driver/alignOverlap/overlap-sort.C.d making atac-driver/alignOverlap/overlap.C.d making atac-driver/libatac/atacMatchOrder.C.d making atac-driver/libatac/atacMatchList.C.d making atac-driver/libatac/atacMatch.C.d making atac-driver/libatac/atacFileStreamMerge.C.d making atac-driver/libatac/atacFile.C.d making atac-driver/libatac/atacFeatureList.C.d making atac-driver/libatac/atacFeature.C.d making ESTmapper/terminate.C.d making ESTmapper/mergeCounts.C.d g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ESTmapper/mergeCounts.o -c ESTmapper/mergeCounts.C ESTmapper/mergeCounts.C: In function 'int main(int, char**)': ESTmapper/mergeCounts.C:33:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf, 256, Fs[i]); ~~~~~^~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o ESTmapper/mergeCounts ESTmapper/mergeCounts.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ESTmapper/terminate.o -c ESTmapper/terminate.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from ESTmapper/terminate.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from ESTmapper/terminate.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from ESTmapper/terminate.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from ESTmapper/terminate.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ ESTmapper/terminate.C: In member function 'void iidReaderWriter::load(uint32)': ESTmapper/terminate.C:82:13: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] fscanf(inFile, uint32FMT, &iid); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ ESTmapper/terminate.C:85:15: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] fscanf(inFile, uint32FMT, &iid); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C: In member function 'void sim4command::finalize()': /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:147:6: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else] if (_genLo > _genHi) ^ /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C: In member function 'char* sim4command::getESTheader()': /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:184:22: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] static char *xxx = "anonymous cDNA sequence"; ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C: In member function 'char* sim4command::getGENheader()': /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:222:15: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] char *xxx = "anonymous genomic sequence"; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.H:8, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C:2: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.H:8, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.H:8, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.H:8, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C:2: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C: In member function 'void Sim4::IDISPLAY(sim4polishBuilder&, char*, char*, char*, char*, int, int, int*, int, int, int, Exon*)': /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:682:71: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] "Empty exon list; no alignment possible!"); ^ /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:682:71: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:695:84: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] "Alignment fragment not found; no alignment possible!"); ^ /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:695:84: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/align.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/align.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/align.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/align.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/align.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/align.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C: In function 'void readModel(Fixed_Length_ICM_t*, const char*)': /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:53:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread (line, sizeof (char), ID_STRING_LEN, fp); // skip the text header line ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:84:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread ((*fixed).permutation, sizeof (int), (*fixed).length, fp); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C:2: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C:2: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.C:2: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.C:2: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:4: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:4: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C: In function 'int readtree(Sim4*, char*, tree*, int)': /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:452:6: warning: variable 'len' set but not used [-Wunused-but-set-variable] int len; ^~~ /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C: In function 'int Is_Cod_NonCod(const int*, double*, int)': /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:751:12: warning: 'scores' may be used uninitialized in this function [-Wmaybe-uninitialized] double *scores; ^~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.C:2: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.C:2: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/table.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C: In member function 'void Sim4::bld_table(char*, int, mss_t, int)': /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C:112:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (emer < 0) ^~ /build/kmer-0~20150903+r2013/libsim4/sim4core/table.C:115:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' ecode <<= 2; ^~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4core/util.o -c /build/kmer-0~20150903+r2013/libsim4/sim4core/util.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/util.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/util.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/util.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4core/util.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:249:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "s4p_compareExons()-- Can't allocate "uint32FMT" + "uint32FMT" words for counting exons.\n%s\n", A->_numExons, B->_numExons, strerror(errno)); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:249:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "s4p_compareExons()-- Can't allocate "uint32FMT" + "uint32FMT" words for counting exons.\n%s\n", A->_numExons, B->_numExons, strerror(errno)); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:365:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "s4p_compareExons()-- Can't allocate "uint32FMT" + "uint32FMT" words for counting exons.\n%s\n", A->_numExons, B->_numExons, strerror(errno)); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:365:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "s4p_compareExons()-- Can't allocate "uint32FMT" + "uint32FMT" words for counting exons.\n%s\n", A->_numExons, B->_numExons, strerror(errno)); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:58:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(gpp, "%c"uint32FMT" ", gaptyp, gapcnt); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:68:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(gpp, "%c"uint32FMT" ", gaptyp, gapcnt); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:80:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(gpp, "%c"uint32FMT" ", gaptyp, gapcnt); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:91:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(gpp, "%c"uint32FMT"", gaptyp, gapcnt); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:163:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Unknown matchOrientation '"uint32FMT"' in printPolish()\n", _matchOrientation); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:176:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Unknown strandOrientation '"uint32FMT"' in printPolish()\n", _matchOrientation); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:88: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:100: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:323:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Unknown strandOrientation '"uint32FMT"' in printPolishGFF3()\n", _matchOrientation); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:346:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:346:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:346:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:91: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:363:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:363:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:363:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:91: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:91: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:46:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Got '%s', expecting 'sim4begin' at byte "uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:65:2: warning: #warning LAZY PROGRAMMER did not extend an array [-Wcpp] #warning LAZY PROGRAMMER did not extend an array ^~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:126:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Got '%s', expecting GFF3 mRNA line at byte "uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:150:2: warning: #warning LAZY PROGRAMMER did not extend an array [-Wcpp] #warning LAZY PROGRAMMER did not extend an array ^~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:104: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:55:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishS4DB()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:72:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishS4DB()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishS4DB()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:169:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishS4DB()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:243:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:243:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:243:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:243:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:246:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:275:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "ID=sim4db"uint32FMT"", &matchID); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:280:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Name="uint32FMT":%s", &_estID, _estDefLine); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:285:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c", &_estID, _estDefLine, &dummy1, &dummy2, &mOri); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:285:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c", &_estID, _estDefLine, &dummy1, &dummy2, &mOri); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:285:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c", &_estID, _estDefLine, &dummy1, &dummy2, &mOri); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:293:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "targetLen="uint32FMT"", &_estLen); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:296:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "pA="uint32FMT"", &_estPolyA); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:299:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "pT="uint32FMT"", &_estPolyT); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:302:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "genRegion="uint32FMT"-"uint32FMT"", &_genRegionOffset, &dummy1); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:302:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "genRegion="uint32FMT"-"uint32FMT"", &_genRegionOffset, &dummy1); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:313:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:339:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:339:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:339:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:339:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:342:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:366:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Parent=sim4db"uint32FMT"", &dummy1); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:370:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target=%s "uint32FMT" "uint32FMT" %c", &dummybuf, &exon._estFrom, &exon._estTo, &mOri); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:370:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target=%s "uint32FMT" "uint32FMT" %c", &dummybuf, &exon._estFrom, &exon._estTo, &mOri); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:377:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "nMatches="uint32FMT"", &exon._numMatches); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:403:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:437:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C: In member function 'void sim4polish::s4p_linesToPolishS4DB(uint32, uint32, char**, uint32*)': /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:140:61: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of non-trivially copyable type 'class sim4polishExon'; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(nnn, _exons, sizeof(sim4polishExon) * _numExons); ^ In file included from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:49:7: note: 'class sim4polishExon' declared here class sim4polishExon { ^~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C: In member function 'void sim4polish::s4p_linesToPolishGFF3(uint32, uint32, char**, uint32*)': /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:261:5: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:261:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:262:5: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:262:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:263:5: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:263:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:264:5: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:264:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:265:5: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:265:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:266:5: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:266:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:267:5: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:267:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:268:5: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:268:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:346:17: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare] if ((dummy1 != _genID) || strcmp(dummybuf, _genDefLine) || ~~~~~~~^~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:347:40: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (sOri != '+') && (sOri != '-') && (sOri != '.')) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:352:7: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:352:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:353:7: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:353:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:354:7: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:354:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:355:7: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:355:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:356:7: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:356:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:357:7: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:357:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:358:7: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:358:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:359:7: warning: this 'while' clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:359:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while' while (*clptr!='\t') clptr++; clptr++; ^~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:370:30: warning: format '%s' expects argument of type 'char*', but argument 3 has type 'char (*)[1000]' [-Wformat=] r = sscanf(crttok, "Target=%s "uint32FMT" "uint32FMT" %c", &dummybuf, &exon._estFrom, &exon._estTo, &mOri); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:383:30: warning: format '%s' expects argument of type 'char*', but argument 3 has type 'char (*)[1000]' [-Wformat=] r = sscanf(crttok, "intron=%s", &dummybuf); ^~~~~~~~~~~ ~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:414:61: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of non-trivially copyable type 'class sim4polishExon'; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(nnn, _exons, sizeof(sim4polishExon) * _numExons); ^ In file included from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:49:7: note: 'class sim4polishExon' declared here class sim4polishExon { ^~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C:2: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C:2: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C: In member function 'sim4polish* sim4polishBuilder::release()': /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:246:57: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of non-trivially copyable type 'class sim4polishExon'; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(it->_exons + i, ex[i], sizeof(sim4polishExon)); ^ In file included from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:7: /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:49:7: note: 'class sim4polishExon' declared here class sim4polishExon { ^~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Failed to reposition %s to record "uint32FMT", only "uint32FMT" records\n", _path, ordinal, _polishRecordLen), exit(1); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:120:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Failed to reposition %s to record "uint32FMT", only "uint32FMT" records\n", _path, ordinal, _polishRecordLen), exit(1); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:248:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "polishes: "uint32FMT"\r", _polishRecordLen); ^ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C: In member function 'void sim4polishFile::loadIndex()': /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:141:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&magic, sizeof(char), 8, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:145:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_polishRecordLen, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:151:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread( _polishRecord, sizeof(polishRecord), _polishRecordLen, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:152:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread( _polishRecordEST, sizeof(uint32), _polishRecordLen, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:153:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread( _polishRecordGEN, sizeof(uint32), _polishRecordLen, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:155:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_maxEST, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:156:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_maxGEN, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:161:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread( _ESTiidLocation, sizeof(uint32), _maxEST, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:162:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread( _GENiidLocation, sizeof(uint32), _maxGEN, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.o -c /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ rm -f /build/kmer-0~20150903+r2013/libsim4/libsim4.a && ar ruvs /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.o /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.o /build/kmer-0~20150903+r2013/libsim4/sim4core/align.o /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.o /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.o /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.o /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.o /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.o /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.o /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.o /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.o /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.o /build/kmer-0~20150903+r2013/libsim4/sim4core/table.o /build/kmer-0~20150903+r2013/libsim4/sim4core/util.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.o /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /build/kmer-0~20150903+r2013/libsim4/libsim4.a a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/align.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/extend.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/greedy.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/poly.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sites.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/splice.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/table.o a - /build/kmer-0~20150903+r2013/libsim4/sim4core/util.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.o a - /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/fastaFile.o -c /build/kmer-0~20150903+r2013/libseq/fastaFile.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaFile.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaFile.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libseq/fastaFile.C:151:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastaFile::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/fastaFile.C:151:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastaFile::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/fastaFile.C:252:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastaFile::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/fastaFile.C:252:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastaFile::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/fastaFile.C: In member function 'void fastaFile::loadIndex(char*)': /build/kmer-0~20150903+r2013/libseq/fastaFile.C:357:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_header, sizeof(fastaFileHeader), 1, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/fastaFile.C:379:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(_index, sizeof(fastaFileIndex), _header._numberOfSequences, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/fastaFile.C:380:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(_names, sizeof(char), _header._namesLength, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/fastaStdin.o -c /build/kmer-0~20150903+r2013/libseq/fastaStdin.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaStdin.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaStdin.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/fastaStdin.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaStdin.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/fastaStdin.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaStdin.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/fastaStdin.H:4, from /build/kmer-0~20150903+r2013/libseq/fastaStdin.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libseq/fastaStdin.C: In member function 'virtual bool fastaStdin::getSequence(uint32, char*&, uint32&, uint32&, char*&, uint32&, uint32&)': /build/kmer-0~20150903+r2013/libseq/fastaStdin.C:110:9: warning: unused variable 'ret' [-Wunused-variable] bool ret = true; ^~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/fastqFile.o -c /build/kmer-0~20150903+r2013/libseq/fastqFile.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqFile.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqFile.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/fastqFile.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/fastqFile.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/fastqFile.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqFile.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libseq/fastqFile.C:141:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastqFile::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/fastqFile.C:141:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastqFile::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/fastqFile.C:253:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastqFile::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/fastqFile.C:253:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastqFile::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/fastqFile.C:533:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "REALLOC len="uint32FMT" from "uint32FMT" to "uint32FMT"\n", indexLen, indexMax, indexMax * 2); ^ /build/kmer-0~20150903+r2013/libseq/fastqFile.C:533:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "REALLOC len="uint32FMT" from "uint32FMT" to "uint32FMT"\n", indexLen, indexMax, indexMax * 2); ^ /build/kmer-0~20150903+r2013/libseq/fastqFile.C:533:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "REALLOC len="uint32FMT" from "uint32FMT" to "uint32FMT"\n", indexLen, indexMax, indexMax * 2); ^ /build/kmer-0~20150903+r2013/libseq/fastqFile.C: In member function 'void fastqFile::loadIndex(char*)': /build/kmer-0~20150903+r2013/libseq/fastqFile.C:354:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_header, sizeof(fastqFileHeader), 1, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/fastqFile.C:374:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(_index, sizeof(fastqFileIndex), _header._numberOfSequences, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/fastqFile.C:375:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(_names, sizeof(char), _header._namesLength, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/fastqStdin.o -c /build/kmer-0~20150903+r2013/libseq/fastqStdin.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqStdin.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqStdin.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/fastqStdin.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqStdin.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/fastqStdin.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqStdin.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/fastqStdin.H:4, from /build/kmer-0~20150903+r2013/libseq/fastqStdin.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libseq/fastqStdin.C: In member function 'virtual bool fastqStdin::getSequence(uint32, char*&, uint32&, uint32&, char*&, uint32&, uint32&)': /build/kmer-0~20150903+r2013/libseq/fastqStdin.C:110:9: warning: unused variable 'ret' [-Wunused-variable] bool ret = true; ^~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/seqStore.o -c /build/kmer-0~20150903+r2013/libseq/seqStore.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libseq/seqStore.H:4, from /build/kmer-0~20150903+r2013/libseq/seqStore.C:2: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/seqStore.H:4, from /build/kmer-0~20150903+r2013/libseq/seqStore.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/seqStore.H:4, from /build/kmer-0~20150903+r2013/libseq/seqStore.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/seqStore.H:4, from /build/kmer-0~20150903+r2013/libseq/seqStore.C:2: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:129:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:129:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:197:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:197:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:203:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- for iid "uint32FMT"; invalid bgn="uint32FMT" end="uint32FMT"; seqLen="uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:203:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- for iid "uint32FMT"; invalid bgn="uint32FMT" end="uint32FMT"; seqLen="uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:203:96: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- for iid "uint32FMT"; invalid bgn="uint32FMT" end="uint32FMT"; seqLen="uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:203:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- for iid "uint32FMT"; invalid bgn="uint32FMT" end="uint32FMT"; seqLen="uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:463:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- sequence %s too long, must be shorter than "uint64FMT" Gbp.\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:467:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- too many sequences, must be fewer than "uint64FMT".\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:620:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- seqStore '%s' constructed ("uint32FMT" sequences, "uint64FMT" ACGT letters, "uint32FMT" ACGT blocks, "uint32FMT" GAP blocks).\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:620:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- seqStore '%s' constructed ("uint32FMT" sequences, "uint64FMT" ACGT letters, "uint32FMT" ACGT blocks, "uint32FMT" GAP blocks).\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:620:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- seqStore '%s' constructed ("uint32FMT" sequences, "uint64FMT" ACGT letters, "uint32FMT" ACGT blocks, "uint32FMT" GAP blocks).\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C:620:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- seqStore '%s' constructed ("uint32FMT" sequences, "uint64FMT" ACGT letters, "uint32FMT" ACGT blocks, "uint32FMT" GAP blocks).\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C: In function 'void constructSeqStore(char*, seqCache*)': /build/kmer-0~20150903+r2013/libseq/seqStore.C:410:42: warning: 'memset' used with constant zero length parameter; this could be due to transposed parameters [-Wmemset-transposed-args] memset(&HEAD, sizeof(seqStoreHeader), 0); ^ /build/kmer-0~20150903+r2013/libseq/seqStore.C: In constructor 'seqStore::seqStore(const char*)': /build/kmer-0~20150903+r2013/libseq/seqStore.C:21:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_header, sizeof(seqStoreHeader), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/seqStore.C: In member function 'virtual seqFile* seqStore::openFile(const char*)': /build/kmer-0~20150903+r2013/libseq/seqStore.C:73:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&magic1, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/seqStore.C:74:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&magic2, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/seqStore.C: In member function 'void seqStore::loadIndex()': /build/kmer-0~20150903+r2013/libseq/seqStore.C:318:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_header, sizeof(seqStoreHeader), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/seqStore.C:329:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread( _index, sizeof(seqStoreIndex), _header._numberOfSequences, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/seqStore.C:343:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread( _block, sizeof(seqStoreBlock), _header._numberOfBlocks, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libseq/seqStore.C:347:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread( _names, sizeof(char), _header._namesLength, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/sffFile.o -c /build/kmer-0~20150903+r2013/libseq/sffFile.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libseq/sffFile.H:4, from /build/kmer-0~20150903+r2013/libseq/sffFile.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/sffFile.H:4, from /build/kmer-0~20150903+r2013/libseq/sffFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/sffFile.H:4, from /build/kmer-0~20150903+r2013/libseq/sffFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/sffFile.H:4, from /build/kmer-0~20150903+r2013/libseq/sffFile.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/seqFactory.o -c /build/kmer-0~20150903+r2013/libseq/seqFactory.C In file included from /build/kmer-0~20150903+r2013/libseq/seqFactory.H:4, from /build/kmer-0~20150903+r2013/libseq/seqFactory.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /build/kmer-0~20150903+r2013/libseq/seqFactory.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /build/kmer-0~20150903+r2013/libseq/seqFactory.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /build/kmer-0~20150903+r2013/libseq/seqFactory.C:3: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/seqCache.o -c /build/kmer-0~20150903+r2013/libseq/seqCache.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/seqCache.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/seqCache.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/seqCache.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/seqCache.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libseq/seqCache.C:171:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqCache::loadAllSequences()-- Failed to load iid "uint32FMT".\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/seqStream.o -c /build/kmer-0~20150903+r2013/libseq/seqStream.C In file included from /build/kmer-0~20150903+r2013/libseq/seqFactory.H:4, from /build/kmer-0~20150903+r2013/libseq/seqStream.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/seqStream.H:4, from /build/kmer-0~20150903+r2013/libseq/seqStream.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/seqStream.H:4, from /build/kmer-0~20150903+r2013/libseq/seqStream.C:2: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/seqStream.H:4, from /build/kmer-0~20150903+r2013/libseq/seqStream.C:2: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:236:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::setRange()-- ERROR: range ("uint64FMT","uint64FMT") too big; only "uint64FMT" positions.\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:236:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::setRange()-- ERROR: range ("uint64FMT","uint64FMT") too big; only "uint64FMT" positions.\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:236:82: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::setRange()-- ERROR: range ("uint64FMT","uint64FMT") too big; only "uint64FMT" positions.\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:268:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::sequenceNumberOfPosition()-- WARNING: position p="uint64FMT" too big; only "uint64FMT" positions.\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:268:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::sequenceNumberOfPosition()-- WARNING: position p="uint64FMT" too big; only "uint64FMT" positions.\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:340:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #1 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:340:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #1 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:340:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #1 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:386:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #2 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:386:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #2 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/seqStream.C:386:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #2 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/merStream.o -c /build/kmer-0~20150903+r2013/libseq/merStream.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libseq/merStream.H:4, from /build/kmer-0~20150903+r2013/libseq/merStream.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/merStream.H:4, from /build/kmer-0~20150903+r2013/libseq/merStream.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/merStream.H:4, from /build/kmer-0~20150903+r2013/libseq/merStream.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/merStream.H:4, from /build/kmer-0~20150903+r2013/libseq/merStream.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/test-seqCache.o -c /build/kmer-0~20150903+r2013/libseq/test-seqCache.C In file included from /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:3: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:7: /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:33:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Using seed "uint32FMT"\n", seed); ^ /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:15:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - empty sequence\n", testID); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:22:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - header differs '%s' vs '%s'\n", testID, S->header(), correctSequence[sid].header); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:26:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - header length differs "uint32FMT" vs "uint32FMT"\n", testID, S->headerLength(), correctSequence[sid].headerLength); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:26:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - header length differs "uint32FMT" vs "uint32FMT"\n", testID, S->headerLength(), correctSequence[sid].headerLength); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:26:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - header length differs "uint32FMT" vs "uint32FMT"\n", testID, S->headerLength(), correctSequence[sid].headerLength); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:30:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence differs\n", testID); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:34:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs strlen "uint32FMT" vs "uint32FMT"\n", testID, (uint32)strlen(S->sequence()), correctSequence[sid].sequenceLength); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:34:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs strlen "uint32FMT" vs "uint32FMT"\n", testID, (uint32)strlen(S->sequence()), correctSequence[sid].sequenceLength); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:34:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs strlen "uint32FMT" vs "uint32FMT"\n", testID, (uint32)strlen(S->sequence()), correctSequence[sid].sequenceLength); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:38:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs "uint32FMT" vs "uint32FMT"\n", testID, S->sequenceLength(), correctSequence[sid].sequenceLength); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:38:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs "uint32FMT" vs "uint32FMT"\n", testID, S->sequenceLength(), correctSequence[sid].sequenceLength); ^ /build/kmer-0~20150903+r2013/libseq/test-seqCache.C:38:77: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs "uint32FMT" vs "uint32FMT"\n", testID, S->sequenceLength(), correctSequence[sid].sequenceLength); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/test-seqStream.o -c /build/kmer-0~20150903+r2013/libseq/test-seqStream.C In file included from /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:3: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:7: /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:33:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Using seed "uint32FMT"\n", seed); ^ /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:17:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testIndexing()-- numSeq="uint32FMT" sep=%c sepLen="uint32FMT"\n", numSeq, sep, sepLen); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:17:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testIndexing()-- numSeq="uint32FMT" sep=%c sepLen="uint32FMT"\n", numSeq, sep, sepLen); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:55:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:55:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:55:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:60:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "startOf "uint32FMT" returned "uint64FMT", not correct "uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:60:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "startOf "uint32FMT" returned "uint64FMT", not correct "uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:60:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "startOf "uint32FMT" returned "uint64FMT", not correct "uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:65:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IIDOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:65:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IIDOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:65:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IIDOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:74:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sequenceNumberOfPosition "uint64FMT" returned "uint32FMT", not correct "uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:74:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sequenceNumberOfPosition "uint64FMT" returned "uint32FMT", not correct "uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:74:82: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sequenceNumberOfPosition "uint64FMT" returned "uint32FMT", not correct "uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:95:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "wrong separator at sep "uint32FMT" got %d expected %d\n", x, s, sep); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:124:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- letter wrong got'%c'\n", sp, si, st, ch, chainSeq[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:124:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- letter wrong got'%c'\n", sp, si, st, ch, chainSeq[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:124:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- letter wrong got'%c'\n", sp, si, st, ch, chainSeq[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:128:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqPos wrong got "uint32FMT"\n", sp, si, st, ch, chainSeqPos[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:128:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqPos wrong got "uint32FMT"\n", sp, si, st, ch, chainSeqPos[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:128:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqPos wrong got "uint32FMT"\n", sp, si, st, ch, chainSeqPos[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:128:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqPos wrong got "uint32FMT"\n", sp, si, st, ch, chainSeqPos[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:132:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqIID wrong got"uint32FMT"\n", sp, si, st, ch, chainSeqIID[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:132:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqIID wrong got"uint32FMT"\n", sp, si, st, ch, chainSeqIID[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:132:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqIID wrong got"uint32FMT"\n", sp, si, st, ch, chainSeqIID[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:132:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqIID wrong got"uint32FMT"\n", sp, si, st, ch, chainSeqIID[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:136:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- strPos wrong got "uint64FMT"\n", sp, si, st, ch, chainStrPos[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:136:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- strPos wrong got "uint64FMT"\n", sp, si, st, ch, chainStrPos[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:136:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- strPos wrong got "uint64FMT"\n", sp, si, st, ch, chainStrPos[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:136:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- strPos wrong got "uint64FMT"\n", sp, si, st, ch, chainStrPos[sib]); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:145:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iterated length wrong; sib="uint32FMT" sie="uint32FMT"\n", sib, sie); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:145:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iterated length wrong; sib="uint32FMT" sie="uint32FMT"\n", sib, sie); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:159:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testChaining()-- numSeq="uint32FMT" sep=%c sepLen="uint32FMT"\n", numSeq, sep, sepLen); ^ /build/kmer-0~20150903+r2013/libseq/test-seqStream.C:159:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testChaining()-- numSeq="uint32FMT" sep=%c sepLen="uint32FMT"\n", numSeq, sep, sepLen); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libseq/test-merStream.o -c /build/kmer-0~20150903+r2013/libseq/test-merStream.C In file included from /build/kmer-0~20150903+r2013/libseq/test-merStream.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/test-merStream.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/test-merStream.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /build/kmer-0~20150903+r2013/libseq/test-merStream.C:3: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libseq/test-merStream.C:7: /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:33:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Using seed "uint32FMT"\n", seed); ^ /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /build/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:11:2: warning: #warning HOW DO WE TEST IF WE GET ALL THE MERS? [-Wcpp] #warning HOW DO WE TEST IF WE GET ALL THE MERS? ^~~~~~~ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:33:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" posInSeq="uint64FMT" posInStr="uint64FMT" seqNum="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:33:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" posInSeq="uint64FMT" posInStr="uint64FMT" seqNum="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:33:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" posInSeq="uint64FMT" posInStr="uint64FMT" seqNum="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:33:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" posInSeq="uint64FMT" posInStr="uint64FMT" seqNum="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:39:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" failed '%s' != '%s'.\n", pos, testmer, seq + pos); ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:124:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer stream position out of range; at "uint32FMT", range "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:124:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer stream position out of range; at "uint32FMT", range "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:124:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer stream position out of range; at "uint32FMT", range "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C: In function 'int main(int, char**)': /build/kmer-0~20150903+r2013/libseq/test-merStream.C:223:64: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] testMerStreamSimple(MS, 20, "GGGTCAACTCCGCCCGCACTCTAGC", SP); ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:225:64: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] testMerStreamSimple(MS, 20, "GGGTCAACTCCGCCCGCACTCTAGC", SP); ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:228:64: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] testMerStreamSimple(MS, 20, "GGGTCAACTCCGCCCGCACTCTAGC", SP); ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:243:60: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] testMerStreamSimple(MS, 20, "GATCACTCGCGCACTCTAGCA", SP); ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:245:60: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] testMerStreamSimple(MS, 20, "GATCACTCGCGCACTCTAGCA", SP); ^ /build/kmer-0~20150903+r2013/libseq/test-merStream.C:248:60: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] testMerStreamSimple(MS, 20, "GATCACTCGCGCACTCTAGCA", SP); ^ rm -f /build/kmer-0~20150903+r2013/libseq/libseq.a && ar ruvs /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libseq/fastaFile.o /build/kmer-0~20150903+r2013/libseq/fastaStdin.o /build/kmer-0~20150903+r2013/libseq/fastqFile.o /build/kmer-0~20150903+r2013/libseq/fastqStdin.o /build/kmer-0~20150903+r2013/libseq/seqStore.o /build/kmer-0~20150903+r2013/libseq/sffFile.o /build/kmer-0~20150903+r2013/libseq/seqFactory.o /build/kmer-0~20150903+r2013/libseq/seqCache.o /build/kmer-0~20150903+r2013/libseq/seqStream.o /build/kmer-0~20150903+r2013/libseq/merStream.o /build/kmer-0~20150903+r2013/libseq/test-seqCache.o /build/kmer-0~20150903+r2013/libseq/test-seqStream.o /build/kmer-0~20150903+r2013/libseq/test-merStream.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /build/kmer-0~20150903+r2013/libseq/libseq.a a - /build/kmer-0~20150903+r2013/libseq/fastaFile.o a - /build/kmer-0~20150903+r2013/libseq/fastaStdin.o a - /build/kmer-0~20150903+r2013/libseq/fastqFile.o a - /build/kmer-0~20150903+r2013/libseq/fastqStdin.o a - /build/kmer-0~20150903+r2013/libseq/seqStore.o a - /build/kmer-0~20150903+r2013/libseq/sffFile.o a - /build/kmer-0~20150903+r2013/libseq/seqFactory.o a - /build/kmer-0~20150903+r2013/libseq/seqCache.o a - /build/kmer-0~20150903+r2013/libseq/seqStream.o a - /build/kmer-0~20150903+r2013/libseq/merStream.o a - /build/kmer-0~20150903+r2013/libseq/test-seqCache.o a - /build/kmer-0~20150903+r2013/libseq/test-seqStream.o a - /build/kmer-0~20150903+r2013/libseq/test-merStream.o gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libbio/alphabet.o -c /build/kmer-0~20150903+r2013/libbio/alphabet.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.o -c /build/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libbio/alphabet-colorspace.o -c /build/kmer-0~20150903+r2013/libbio/alphabet-colorspace.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libbio/halign.o -c /build/kmer-0~20150903+r2013/libbio/halign.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libbio/reversecomplement.o -c /build/kmer-0~20150903+r2013/libbio/reversecomplement.c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libbio/kmer.o -c /build/kmer-0~20150903+r2013/libbio/kmer.C In file included from /build/kmer-0~20150903+r2013/libbio/kmer.H:28, from /build/kmer-0~20150903+r2013/libbio/kmer.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/kmer.H:29, from /build/kmer-0~20150903+r2013/libbio/kmer.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/kmer.H:29, from /build/kmer-0~20150903+r2013/libbio/kmer.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/kmer.H:29, from /build/kmer-0~20150903+r2013/libbio/kmer.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ rm -f /build/kmer-0~20150903+r2013/libbio/libbio.a && ar ruvs /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libbio/alphabet.o /build/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.o /build/kmer-0~20150903+r2013/libbio/alphabet-colorspace.o /build/kmer-0~20150903+r2013/libbio/halign.o /build/kmer-0~20150903+r2013/libbio/reversecomplement.o /build/kmer-0~20150903+r2013/libbio/kmer.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /build/kmer-0~20150903+r2013/libbio/libbio.a a - /build/kmer-0~20150903+r2013/libbio/alphabet.o a - /build/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.o a - /build/kmer-0~20150903+r2013/libbio/alphabet-colorspace.o a - /build/kmer-0~20150903+r2013/libbio/halign.o a - /build/kmer-0~20150903+r2013/libbio/reversecomplement.o a - /build/kmer-0~20150903+r2013/libbio/kmer.o gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/file.o -c /build/kmer-0~20150903+r2013/libutil/file.c /build/kmer-0~20150903+r2013/libutil/file.c: In function 'openFile': /build/kmer-0~20150903+r2013/libutil/file.c:382:9: warning: variable 'isRW' set but not used [-Wunused-but-set-variable] int isRW = 1; ^~~~ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/md5.o -c /build/kmer-0~20150903+r2013/libutil/md5.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/palloc.o -c /build/kmer-0~20150903+r2013/libutil/palloc.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/qsort_mt.o -c /build/kmer-0~20150903+r2013/libutil/qsort_mt.c /build/kmer-0~20150903+r2013/libutil/qsort_mt.c: In function 'qsort_algo': /build/kmer-0~20150903+r2013/libutil/qsort_mt.c:264:13: warning: variable 'id' set but not used [-Wunused-but-set-variable] pthread_t id; ^~ /build/kmer-0~20150903+r2013/libutil/qsort_mt.c: In function 'qsort_thread': /build/kmer-0~20150903+r2013/libutil/qsort_mt.c:370:13: warning: variable 'id' set but not used [-Wunused-but-set-variable] pthread_t id; ^~ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/util.o -c /build/kmer-0~20150903+r2013/libutil/util.c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/bigQueue.o -c /build/kmer-0~20150903+r2013/libutil/bigQueue.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libutil/bigQueue.H:4, from /build/kmer-0~20150903+r2013/libutil/bigQueue.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libutil/bigQueue.H:4, from /build/kmer-0~20150903+r2013/libutil/bigQueue.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libutil/bigQueue.H:4, from /build/kmer-0~20150903+r2013/libutil/bigQueue.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libutil/bigQueue.H:4, from /build/kmer-0~20150903+r2013/libutil/bigQueue.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libutil/bigQueue.C: In member function 'void bigQueue::mergeTemporaryFiles()': /build/kmer-0~20150903+r2013/libutil/bigQueue.C:204:16: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(thing, _objectSize, 1, _temporaryFiles[i]); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/bigQueue.C:255:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(thing, _objectSize, 1, _temporaryFiles[fileid]); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/bigQueue.C: In member function 'bool bigQueue::next()': /build/kmer-0~20150903+r2013/libutil/bigQueue.C:302:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(_thingBuffer, _objectSize, 1, _temporaryFiles[0]); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/bitPackedArray.o -c /build/kmer-0~20150903+r2013/libutil/bitPackedArray.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libutil/bitPackedArray.C:8: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libutil/bitPackedArray.C:8: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libutil/bitPackedArray.C:8: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libutil/bitPackedArray.C:8: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.C:35:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "bitPackedArray::get()-- element index "uint64FMT" is out of range, only "uint64FMT" elements.\n", ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.C:35:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "bitPackedArray::get()-- element index "uint64FMT" is out of range, only "uint64FMT" elements.\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/bitPackedFile.o -c /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:168:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " at position "uint64HEX"\n", file_offset); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:367:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "bitPackedFile::seekNormal() '%s' seek to pos="uint64FMT" failed: %s\n", ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:376:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "bitPackedFile::seekNormal() '%s' read of "uint64FMT" bytes failed': %s\n", ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C: In constructor 'bitPackedFile::bitPackedFile(const char*, uint64, bool)': /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:109:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, t, sizeof(char) * 16); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:110:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &at, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:111:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &bt, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C: In member function 'void bitPackedFile::flushDirty()': /build/kmer-0~20150903+r2013/libutil/bitPackedFile.C:232:8: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, _bfr, sizeof(uint64) * _bfrmax); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/fibonacciNumbers.o -c /build/kmer-0~20150903+r2013/libutil/fibonacciNumbers.C In file included from /build/kmer-0~20150903+r2013/libutil/fibonacciNumbers.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/readBuffer.o -c /build/kmer-0~20150903+r2013/libutil/readBuffer.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libutil/readBuffer.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libutil/readBuffer.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libutil/readBuffer.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libutil/readBuffer.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libutil/readBuffer.C:132:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "readBuffer::fillBuffer()-- only read "uint64FMT" bytes, couldn't read "uint64FMT" bytes from '%s': %s\n", ^ /build/kmer-0~20150903+r2013/libutil/readBuffer.C:132:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "readBuffer::fillBuffer()-- only read "uint64FMT" bytes, couldn't read "uint64FMT" bytes from '%s': %s\n", ^ /build/kmer-0~20150903+r2013/libutil/readBuffer.C:165:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "readBuffer()-- '%s' couldn't seek to position "int64FMT": %s\n", ^ /build/kmer-0~20150903+r2013/libutil/readBuffer.C:228:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "readBuffer()-- couldn't read "uint64FMT" bytes from '%s': n%s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/recordFile.o -c /build/kmer-0~20150903+r2013/libutil/recordFile.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libutil/recordFile.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libutil/recordFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libutil/recordFile.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libutil/recordFile.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libutil/recordFile.C:227:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' seek to record="uint64FMT" at fileposition="uint64FMT" failed: %s\n", ^ /build/kmer-0~20150903+r2013/libutil/recordFile.C:227:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' seek to record="uint64FMT" at fileposition="uint64FMT" failed: %s\n", ^ /build/kmer-0~20150903+r2013/libutil/recordFile.C:233:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' read of "uint64FMT" bytes failed at record "uint64FMT", fileposition "uint64FMT"': %s\n", ^ /build/kmer-0~20150903+r2013/libutil/recordFile.C:233:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' read of "uint64FMT" bytes failed at record "uint64FMT", fileposition "uint64FMT"': %s\n", ^ /build/kmer-0~20150903+r2013/libutil/recordFile.C:233:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' read of "uint64FMT" bytes failed at record "uint64FMT", fileposition "uint64FMT"': %s\n", ^ /build/kmer-0~20150903+r2013/libutil/recordFile.C: In constructor 'recordFile::recordFile(const char*, uint32, uint32, char)': /build/kmer-0~20150903+r2013/libutil/recordFile.C:68:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &recordFileMagic1, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:69:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &recordFileMagic2, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:70:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &_numRecords, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:71:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &_recordSize, sizeof(uint32)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:72:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &_headerSize, sizeof(uint32)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:73:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, _header, sizeof(char) * _headerSize); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:112:9: warning: ignoring return value of 'ssize_t read(int, void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] read(_file, &m1, sizeof(uint64)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:113:9: warning: ignoring return value of 'ssize_t read(int, void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] read(_file, &m2, sizeof(uint64)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:114:9: warning: ignoring return value of 'ssize_t read(int, void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] read(_file, &_numRecords, sizeof(uint64)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:115:9: warning: ignoring return value of 'ssize_t read(int, void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] read(_file, &_recordSize, sizeof(uint32)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:116:9: warning: ignoring return value of 'ssize_t read(int, void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] read(_file, &_headerSize, sizeof(uint32)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:117:9: warning: ignoring return value of 'ssize_t read(int, void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] read(_file, _header, sizeof(char) * _headerSize); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C: In destructor 'recordFile::~recordFile()': /build/kmer-0~20150903+r2013/libutil/recordFile.C:151:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &recordFileMagic1, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:152:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &recordFileMagic2, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:153:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &_numRecords, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:154:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &_recordSize, sizeof(uint32)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:155:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, &_headerSize, sizeof(uint32)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C:156:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, _header, sizeof(char) * _headerSize); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C: In member function 'void recordFile::flushDirty()': /build/kmer-0~20150903+r2013/libutil/recordFile.C:197:8: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(_file, _bfr, _recordSize * _rec); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libutil/recordFile.C: In member function 'void recordFile::seek(uint64, bool)': /build/kmer-0~20150903+r2013/libutil/recordFile.C:231:7: warning: ignoring return value of 'ssize_t read(int, void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] read(_file, _bfr, _recordSize * _bfrmax); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/speedCounter.o -c /build/kmer-0~20150903+r2013/libutil/speedCounter.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libutil/speedCounter.C:4: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libutil/speedCounter.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libutil/speedCounter.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libutil/speedCounter.C:4: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/sweatShop.o -c /build/kmer-0~20150903+r2013/libutil/sweatShop.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libutil/sweatShop.H:7, from /build/kmer-0~20150903+r2013/libutil/sweatShop.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libutil/sweatShop.H:7, from /build/kmer-0~20150903+r2013/libutil/sweatShop.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libutil/sweatShop.H:7, from /build/kmer-0~20150903+r2013/libutil/sweatShop.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libutil/sweatShop.H:7, from /build/kmer-0~20150903+r2013/libutil/sweatShop.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:127:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sweatShop::setThreadData()-- worker ID "uint32FMT" more than number of workers="uint32FMT"\n", t, _numberOfWorkers), exit(1); ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:127:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sweatShop::setThreadData()-- worker ID "uint32FMT" more than number of workers="uint32FMT"\n", t, _numberOfWorkers), exit(1); ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:390:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:390:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:390:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:390:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:390:135: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:425:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" queued for output)\n", ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:425:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" queued for output)\n", ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:425:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" queued for output)\n", ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:560:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sweatShop::run()-- Failed to launch worker thread "uint32FMT": %s.\n", i, strerror(err)), exit(1); ^ /build/kmer-0~20150903+r2013/libutil/sweatShop.C:580:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sweatShop::run()-- Failed to join worker thread "uint32FMT": %s.\n", i, strerror(err)), exit(1); ^ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/kazlib/dict.o -c /build/kmer-0~20150903+r2013/libutil/kazlib/dict.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/kazlib/except.o -c /build/kmer-0~20150903+r2013/libutil/kazlib/except.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/kazlib/hash.o -c /build/kmer-0~20150903+r2013/libutil/kazlib/hash.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/kazlib/list.o -c /build/kmer-0~20150903+r2013/libutil/kazlib/list.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/kazlib/sfx.o -c /build/kmer-0~20150903+r2013/libutil/kazlib/sfx.c rm -f /build/kmer-0~20150903+r2013/libutil/libutil.a && ar ruvs /build/kmer-0~20150903+r2013/libutil/libutil.a /build/kmer-0~20150903+r2013/libutil/file.o /build/kmer-0~20150903+r2013/libutil/md5.o /build/kmer-0~20150903+r2013/libutil/palloc.o /build/kmer-0~20150903+r2013/libutil/qsort_mt.o /build/kmer-0~20150903+r2013/libutil/util.o /build/kmer-0~20150903+r2013/libutil/bigQueue.o /build/kmer-0~20150903+r2013/libutil/bitPackedArray.o /build/kmer-0~20150903+r2013/libutil/bitPackedFile.o /build/kmer-0~20150903+r2013/libutil/fibonacciNumbers.o /build/kmer-0~20150903+r2013/libutil/readBuffer.o /build/kmer-0~20150903+r2013/libutil/recordFile.o /build/kmer-0~20150903+r2013/libutil/speedCounter.o /build/kmer-0~20150903+r2013/libutil/sweatShop.o /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o /build/kmer-0~20150903+r2013/libutil/kazlib/dict.o /build/kmer-0~20150903+r2013/libutil/kazlib/except.o /build/kmer-0~20150903+r2013/libutil/kazlib/hash.o /build/kmer-0~20150903+r2013/libutil/kazlib/list.o /build/kmer-0~20150903+r2013/libutil/kazlib/sfx.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /build/kmer-0~20150903+r2013/libutil/libutil.a a - /build/kmer-0~20150903+r2013/libutil/file.o a - /build/kmer-0~20150903+r2013/libutil/md5.o a - /build/kmer-0~20150903+r2013/libutil/palloc.o a - /build/kmer-0~20150903+r2013/libutil/qsort_mt.o a - /build/kmer-0~20150903+r2013/libutil/util.o a - /build/kmer-0~20150903+r2013/libutil/bigQueue.o a - /build/kmer-0~20150903+r2013/libutil/bitPackedArray.o a - /build/kmer-0~20150903+r2013/libutil/bitPackedFile.o a - /build/kmer-0~20150903+r2013/libutil/fibonacciNumbers.o a - /build/kmer-0~20150903+r2013/libutil/readBuffer.o a - /build/kmer-0~20150903+r2013/libutil/recordFile.o a - /build/kmer-0~20150903+r2013/libutil/speedCounter.o a - /build/kmer-0~20150903+r2013/libutil/sweatShop.o a - /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o a - /build/kmer-0~20150903+r2013/libutil/kazlib/dict.o a - /build/kmer-0~20150903+r2013/libutil/kazlib/except.o a - /build/kmer-0~20150903+r2013/libutil/kazlib/hash.o a - /build/kmer-0~20150903+r2013/libutil/kazlib/list.o a - /build/kmer-0~20150903+r2013/libutil/kazlib/sfx.o g++ -Wl,-z,relro -Wl,-z,now -o ESTmapper/terminate ESTmapper/terminate.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacFeature.o -c atac-driver/libatac/atacFeature.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacFeature.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeature.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeature.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeature.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacFeature.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacFeature.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFeature.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFeature.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacFeature.C:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Feature longer than sequence (by "uint32FMT"bp): seqLen="uint32FMTW(8)" %s\n", ^ atac-driver/libatac/atacFeature.C:109:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Feature longer than sequence (by "uint32FMT"bp): seqLen="uint32FMTW(8)" %s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacFeatureList.o -c atac-driver/libatac/atacFeatureList.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacFeatureList.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeatureList.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeatureList.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeatureList.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacFeatureList.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacFeatureList.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFeatureList.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFeatureList.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacFeatureList.C: In member function 'void atacFeatureList::add(atacFeature&)': atac-driver/libatac/atacFeatureList.C:50:52: warning: operation on '((atacFeatureList*)this)->atacFeatureList::_featuresLen' may be undefined [-Wsequence-point] _features[_featuresLen].featureiid = _featuresLen++; ~~~~~~~~~~~~^~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacFile.o -c atac-driver/libatac/atacFile.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacFile.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFile.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFile.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFile.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacFile.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacFile.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFile.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFile.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacFile.C: In member function 'atacMatch* atacFileStream::nextMatch(char)': atac-driver/libatac/atacFile.C:76:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(_inLine, 1024, _inFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/libatac/atacFile.C: In member function 'atacFeature* atacFileStream::nextFeature(char*)': atac-driver/libatac/atacFile.C:105:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(_inLine, 1024, _inFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/libatac/atacFile.C: In constructor 'atacFile::atacFile(const char*)': atac-driver/libatac/atacFile.C:171:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, inFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~ atac-driver/libatac/atacFile.C: In member function 'void atacFileBase::readHeader(char*, FILE*)': atac-driver/libatac/atacFile.C:206:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, in); ~~~~~^~~~~~~~~~~~~~~~~~ atac-driver/libatac/atacFile.C:245:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, in); ~~~~~^~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacFileStreamMerge.o -c atac-driver/libatac/atacFileStreamMerge.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacFileStreamMerge.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFileStreamMerge.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFileStreamMerge.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFileStreamMerge.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacFileStreamMerge.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacFileStreamMerge.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFileStreamMerge.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFileStreamMerge.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacFileStreamMerge.C: In member function 'void atacFileStreamMerge::addFile(const char*)': atac-driver/libatac/atacFileStreamMerge.C:86:47: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of non-trivially copyable type 'class afsm'; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(F, _files, sizeof(afsm) * _filesLen); ^ atac-driver/libatac/atacFileStreamMerge.C:27:7: note: 'class afsm' declared here class afsm { ^~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacMatch.o -c atac-driver/libatac/atacMatch.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atac.H:26, from atac-driver/libatac/atacMatch.C:19: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atac.H:26, from atac-driver/libatac/atacMatch.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atac.H:26, from atac-driver/libatac/atacMatch.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atac.H:26, from atac-driver/libatac/atacMatch.C:19: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacMatch.C:19: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacMatch.C:19: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatch.C:19: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatch.C:19: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacMatch.C:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Match longer than sequence (by "uint32FMT"bp) in 1: seqLen="uint32FMTW(8)" %s\n", ^ atac-driver/libatac/atacMatch.C:131:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Match longer than sequence (by "uint32FMT"bp) in 1: seqLen="uint32FMTW(8)" %s\n", ^ atac-driver/libatac/atacMatch.C:139:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Match longer than sequence (by "uint32FMT"bp) in 2: seqLen="uint32FMTW(8)" %s\n", ^ atac-driver/libatac/atacMatch.C:139:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Match longer than sequence (by "uint32FMT"bp) in 2: seqLen="uint32FMTW(8)" %s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacMatchList.o -c atac-driver/libatac/atacMatchList.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacMatchList.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchList.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchList.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchList.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacMatchList.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacMatchList.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatchList.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatchList.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacMatchOrder.o -c atac-driver/libatac/atacMatchOrder.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacMatchOrder.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchOrder.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchOrder.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchOrder.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacMatchOrder.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacMatchOrder.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatchOrder.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatchOrder.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacMatchOrder.C:38:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(n.matchuid, "merge"uint32FMT, mergeuid); ^ rm -f atac-driver/libatac/libatac.a && ar ruvs atac-driver/libatac/libatac.a atac-driver/libatac/atacFeature.o atac-driver/libatac/atacFeatureList.o atac-driver/libatac/atacFile.o atac-driver/libatac/atacFileStreamMerge.o atac-driver/libatac/atacMatch.o atac-driver/libatac/atacMatchList.o atac-driver/libatac/atacMatchOrder.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating atac-driver/libatac/libatac.a a - atac-driver/libatac/atacFeature.o a - atac-driver/libatac/atacFeatureList.o a - atac-driver/libatac/atacFile.o a - atac-driver/libatac/atacFileStreamMerge.o a - atac-driver/libatac/atacMatch.o a - atac-driver/libatac/atacMatchList.o a - atac-driver/libatac/atacMatchOrder.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap.o -c atac-driver/alignOverlap/overlap.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap.C:19: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap.C:19: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ atac-driver/alignOverlap/overlap.C:123:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unmapped: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.unmapped.getSum(), statsB.unmapped.getSum()); ^ atac-driver/alignOverlap/overlap.C:123:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unmapped: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.unmapped.getSum(), statsB.unmapped.getSum()); ^ atac-driver/alignOverlap/overlap.C:124:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unique mapping 1: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.map1unique.getSum(), statsB.map1unique.getSum()); ^ atac-driver/alignOverlap/overlap.C:124:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unique mapping 1: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.map1unique.getSum(), statsB.map1unique.getSum()); ^ atac-driver/alignOverlap/overlap.C:125:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unique mapping 2: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.map2unique.getSum(), statsB.map2unique.getSum()); ^ atac-driver/alignOverlap/overlap.C:125:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unique mapping 2: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.map2unique.getSum(), statsB.map2unique.getSum()); ^ atac-driver/alignOverlap/overlap.C:126:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "different: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.different.getSum(), statsB.different.getSum()); ^ atac-driver/alignOverlap/overlap.C:126:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "different: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.different.getSum(), statsB.different.getSum()); ^ atac-driver/alignOverlap/overlap.C:127:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "wild diff: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.wilddiff.getSum(), statsB.wilddiff.getSum()); ^ atac-driver/alignOverlap/overlap.C:127:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "wild diff: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.wilddiff.getSum(), statsB.wilddiff.getSum()); ^ atac-driver/alignOverlap/overlap.C:128:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "same: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.same.getSum(), statsB.same.getSum()); ^ atac-driver/alignOverlap/overlap.C:128:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "same: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.same.getSum(), statsB.same.getSum()); ^ atac-driver/alignOverlap/overlap.C:129:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "inconsistent: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.inconsistent.getSum(), statsB.inconsistent.getSum()); ^ atac-driver/alignOverlap/overlap.C:129:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "inconsistent: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.inconsistent.getSum(), statsB.inconsistent.getSum()); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-find.o -c atac-driver/alignOverlap/overlap-find.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-find.C:19: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-find.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-find.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-find.C:19: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-find.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-find.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-find.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-find.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-find.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-find.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ atac-driver/alignOverlap/overlap-find.C:45:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "isolated Unique: map1: "uint32FMT" map2: "uint32FMT"\n", sumA, sumB); ^ atac-driver/alignOverlap/overlap-find.C:45:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "isolated Unique: map1: "uint32FMT" map2: "uint32FMT"\n", sumA, sumB); ^ atac-driver/alignOverlap/overlap-find.C:59:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "got invalid type; "uint32FMT" -- %c\n", type, (char)type), exit(1); ^ atac-driver/alignOverlap/overlap-find.C:91:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s: "uint32FMT" len:"uint32FMT"\n", msg, count, len); ^ atac-driver/alignOverlap/overlap-find.C:91:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s: "uint32FMT" len:"uint32FMT"\n", msg, count, len); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-matchTree.o -c atac-driver/alignOverlap/overlap-matchTree.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-matchTree.C:19: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-matchTree.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-matchTree.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-matchTree.C:19: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-matchTree.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-matchTree.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-matchTree.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-matchTree.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-matchTree.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-matchTree.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-printAnno.o -c atac-driver/alignOverlap/overlap-printAnno.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-printAnno.C:19: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-printAnno.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-printAnno.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-printAnno.C:19: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-printAnno.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-printAnno.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-printAnno.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-printAnno.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-printAnno.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-printAnno.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ atac-driver/alignOverlap/overlap-printAnno.C:46:14: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c "uint32FMTW(4)":"uint32FMTW(09)"-"uint32FMTW(09)"["uint32FMTW(6)"] ", ^ atac-driver/alignOverlap/overlap-printAnno.C:46:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c "uint32FMTW(4)":"uint32FMTW(09)"-"uint32FMTW(09)"["uint32FMTW(6)"] ", ^ atac-driver/alignOverlap/overlap-printAnno.C:46:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c "uint32FMTW(4)":"uint32FMTW(09)"-"uint32FMTW(09)"["uint32FMTW(6)"] ", ^ atac-driver/alignOverlap/overlap-printAnno.C:46:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c "uint32FMTW(4)":"uint32FMTW(09)"-"uint32FMTW(09)"["uint32FMTW(6)"] ", ^ atac-driver/alignOverlap/overlap-printAnno.C:63:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:63:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:63:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:65:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid1, m1->pos1 + off1, m1->pos1 + off1 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:65:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid1, m1->pos1 + off1, m1->pos1 + off1 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:65:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid1, m1->pos1 + off1, m1->pos1 + off1 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:69:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:69:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:69:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:85:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:85:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:85:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:87:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid1, m2->pos1 + off2, m2->pos1 + off2 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:87:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid1, m2->pos1 + off2, m2->pos1 + off2 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:87:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid1, m2->pos1 + off2, m2->pos1 + off2 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:91:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:91:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:91:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-sort.o -c atac-driver/alignOverlap/overlap-sort.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-sort.C:19: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-sort.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-sort.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-sort.C:19: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-sort.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-sort.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-sort.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-sort.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-sort.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-sort.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ ln -f /build/kmer-0~20150903+r2013/atac-driver/alignOverlap/overlap-process.C /build/kmer-0~20150903+r2013/atac-driver/alignOverlap/overlap-process1.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -DINDEX=1 -DNAME=process1 -DPOS1=pos1 -DPOS2=pos2 -DLEN2=len2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-process1.o -c atac-driver/alignOverlap/overlap-process1.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process1.C:19: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process1.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process1.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process1.C:19: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process1.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process1.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process1.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process1.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-process1.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-process1.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ ln -f /build/kmer-0~20150903+r2013/atac-driver/alignOverlap/overlap-process.C /build/kmer-0~20150903+r2013/atac-driver/alignOverlap/overlap-process2.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -DINDEX=2 -DNAME=process2 -DPOS1=pos2 -DPOS2=pos1 -DLEN2=len1 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-process2.o -c atac-driver/alignOverlap/overlap-process2.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process2.C:19: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process2.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process2.C:19: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process2.C:19: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process2.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process2.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process2.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process2.C:19: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-process2.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-process2.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/alignOverlap/overlap atac-driver/alignOverlap/overlap.o atac-driver/alignOverlap/overlap-find.o atac-driver/alignOverlap/overlap-matchTree.o atac-driver/alignOverlap/overlap-printAnno.o atac-driver/alignOverlap/overlap-sort.o atac-driver/alignOverlap/overlap-process1.o atac-driver/alignOverlap/overlap-process2.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/gapShifter.o -c atac-driver/gapShifter/gapShifter.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/gapShifter.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/gapShifter.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/gapShifter.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/gapShifter.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/gapShifter.C:23: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/gapShifter.C:23: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/gapShifter.C:23: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/gapShifter.C:23: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:203:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iid1 "uint32FMT", iid2 "uint32FMT"\n", iid1, iid2); ^ atac-driver/gapShifter/gapShifter.C:203:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iid1 "uint32FMT", iid2 "uint32FMT"\n", iid1, iid2); ^ atac-driver/gapShifter/gapShifter.C:223:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iid1 "uint32FMT", iid2 "uint32FMT"\n", iid1, iid2); ^ atac-driver/gapShifter/gapShifter.C:223:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iid1 "uint32FMT", iid2 "uint32FMT"\n", iid1, iid2); ^ atac-driver/gapShifter/gapShifter.C:510:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:510:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:510:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:510:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:510:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:515:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:515:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:515:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:515:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:515:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:523:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:523:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:523:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:523:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:523:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:528:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:528:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:528:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:528:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:528:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:738:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Shifting gaps of length at most "uint32FMT" bases, to the %s.\n", gapLimit, (shiftRight) ? "right" : "left"); ^ atac-driver/gapShifter/gapShifter.C:750:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numShifted = "uint32FMT"\n", numShifted); ^ atac-driver/gapShifter/gapShifter.C:751:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numNotShifted = "uint32FMT"\n", numNotShifted); ^ atac-driver/gapShifter/gapShifter.C:752:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numDiffSeq = "uint32FMT"\n", numDiffSeq); ^ atac-driver/gapShifter/gapShifter.C:753:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numDiffOri = "uint32FMT"\n", numDiffOri); ^ atac-driver/gapShifter/gapShifter.C:754:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numZeroLen = "uint32FMT"\n", numZeroLen); ^ atac-driver/gapShifter/gapShifter.C:755:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numOutOfOrder = "uint32FMT"\n", numOutOfOrder); ^ atac-driver/gapShifter/gapShifter.C:756:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numNotAdjacent = "uint32FMT"\n", numNotAdjacent); ^ atac-driver/gapShifter/gapShifter.C:757:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numNoGap = "uint32FMT"\n", numNoGap); ^ atac-driver/gapShifter/gapShifter.C:758:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numGapTooBig = "uint32FMT"\n", numGapTooBig); ^ atac-driver/gapShifter/gapShifter.C:759:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numOverlapping = "uint32FMT"\n", numOverlapping); ^ atac-driver/gapShifter/gapShifter.C:762:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "amountShifted["uint32FMT"] = "uint32FMT" (number of gaps shifted by [number of bases])\n", x, amountShifted[x]); ^ atac-driver/gapShifter/gapShifter.C:762:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "amountShifted["uint32FMT"] = "uint32FMT" (number of gaps shifted by [number of bases])\n", x, amountShifted[x]); ^ atac-driver/gapShifter/gapShifter.C:764:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shifted "uint32FMT" out of "uint32FMT" (%6.2f%%)\n", gapsShifted, ML.numMatches(), (double)gapsShifted / (double)ML.numMatches() * 100.0); ^ atac-driver/gapShifter/gapShifter.C:764:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shifted "uint32FMT" out of "uint32FMT" (%6.2f%%)\n", gapsShifted, ML.numMatches(), (double)gapsShifted / (double)ML.numMatches() * 100.0); ^ atac-driver/gapShifter/gapShifter.C:780:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/gapShifter atac-driver/gapShifter/gapShifter.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/extractSequence.o -c atac-driver/gapShifter/extractSequence.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/extractSequence.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/extractSequence.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/extractSequence.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/extractSequence.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/extractSequence.C:23: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/extractSequence.C:23: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/extractSequence.C:23: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/extractSequence.C:23: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/extractSequence.C:110:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Aoutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:110:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Aoutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:110:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Aoutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:121:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Boutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:121:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Boutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:121:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Boutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/extractSequence atac-driver/gapShifter/extractSequence.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/extractUnmapped.o -c atac-driver/gapShifter/extractUnmapped.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/extractUnmapped.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/extractUnmapped.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/extractUnmapped.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/extractUnmapped.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/extractUnmapped.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/extractUnmapped.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/extractUnmapped.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/extractUnmapped.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/extractUnmapped.C:105:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(output, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" between match %s(%s) and %s(%s)\n", ^ atac-driver/gapShifter/extractUnmapped.C:105:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(output, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" between match %s(%s) and %s(%s)\n", ^ atac-driver/gapShifter/extractUnmapped.C:105:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(output, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" between match %s(%s) and %s(%s)\n", ^ atac-driver/gapShifter/extractUnmapped.C:583:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Done masking. "uint32FMT" in A, "uint32FMT" in B.\n", stats[0], stats[1]); ^ atac-driver/gapShifter/extractUnmapped.C:583:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Done masking. "uint32FMT" in A, "uint32FMT" in B.\n", stats[0], stats[1]); ^ atac-driver/gapShifter/extractUnmapped.C: In function 'int main(int, char**)': atac-driver/gapShifter/extractUnmapped.C:541:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(L, 1024, F); ~~~~~^~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/extractUnmapped atac-driver/gapShifter/extractUnmapped.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/coalesceMatches.o -c atac-driver/gapShifter/coalesceMatches.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/coalesceMatches.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/coalesceMatches.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/coalesceMatches.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/coalesceMatches.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/coalesceMatches.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/coalesceMatches.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/coalesceMatches.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/coalesceMatches.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/coalesceMatches atac-driver/gapShifter/coalesceMatches.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/correctGaps.o -c atac-driver/gapShifter/correctGaps.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/correctGaps.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/correctGaps.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/correctGaps.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/correctGaps.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/correctGaps.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/correctGaps.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/correctGaps.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/correctGaps.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/correctGaps.C:138:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "HEY! F gap of size "uint32FMT" not in a run?\n", gap1); ^ atac-driver/gapShifter/correctGaps.C:200:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "HEY! R gap of size "uint32FMT" not in a run?\n", gap1); ^ atac-driver/gapShifter/correctGaps.C:222:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "CLOSE "uint32FMT"----------------------------------------\n", gap1); ^ atac-driver/gapShifter/correctGaps.C:235:22: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "At gapSize="uint32FMT" closed "uint32FMT" f-gaps and "uint32FMT" r-gaps.\n", gapsize, fgaps, rgaps); ^ atac-driver/gapShifter/correctGaps.C:235:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "At gapSize="uint32FMT" closed "uint32FMT" f-gaps and "uint32FMT" r-gaps.\n", gapsize, fgaps, rgaps); ^ atac-driver/gapShifter/correctGaps.C:235:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "At gapSize="uint32FMT" closed "uint32FMT" f-gaps and "uint32FMT" r-gaps.\n", gapsize, fgaps, rgaps); ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/correctGaps atac-driver/gapShifter/correctGaps.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/testAtac.o -c atac-driver/gapShifter/testAtac.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/testAtac.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/testAtac.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/testAtac.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/testAtac.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/testAtac.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/testAtac.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/testAtac.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/testAtac.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/testAtac.C:89:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "match "uint32FMT" is only %6.2f%% identity: ", ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/testAtac atac-driver/gapShifter/testAtac.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/cleanAtac.o -c atac-driver/gapShifter/cleanAtac.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/cleanAtac.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/cleanAtac.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/cleanAtac.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/cleanAtac.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/cleanAtac.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/cleanAtac.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/cleanAtac.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/cleanAtac.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/cleanAtac.C:149:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "match "uint32FMT" is only %6.2f%% identity and "uint32FMT" long: ", ^ atac-driver/gapShifter/cleanAtac.C:149:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "match "uint32FMT" is only %6.2f%% identity and "uint32FMT" long: ", ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/cleanAtac atac-driver/gapShifter/cleanAtac.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/projectFeatures.o -c atac-driver/gapShifter/projectFeatures.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/projectFeatures.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/projectFeatures.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/projectFeatures.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/projectFeatures.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/projectFeatures.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/projectFeatures.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/projectFeatures.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/projectFeatures.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/projectFeatures.C:72:2: warning: #warning BROKEN [-Wcpp] #warning BROKEN ^~~~~~~ atac-driver/gapShifter/projectFeatures.C:132:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:124: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:124: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:124: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:124: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/projectFeatures atac-driver/gapShifter/projectFeatures.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/lengthFilter/lengthFilter.o -c atac-driver/lengthFilter/lengthFilter.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from atac-driver/lengthFilter/lengthFilter.C:24: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from atac-driver/lengthFilter/lengthFilter.C:24: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from atac-driver/lengthFilter/lengthFilter.C:24: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from atac-driver/lengthFilter/lengthFilter.C:24: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ atac-driver/lengthFilter/lengthFilter.C:46:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(inLine, "/globalMatchMinSize="uint32FMT"\n", minLength); ^ atac-driver/lengthFilter/lengthFilter.C:57:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "/globalMatchMinSize="uint32FMT"\n", minLength); ^ atac-driver/lengthFilter/lengthFilter.C:114:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthFilter: Discarded "uint32FMTW(8)" matches with total length "uint32FMTW(10)", %7.3f%% of the sequence in matches.\n", ^ atac-driver/lengthFilter/lengthFilter.C:114:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthFilter: Discarded "uint32FMTW(8)" matches with total length "uint32FMTW(10)", %7.3f%% of the sequence in matches.\n", ^ atac-driver/lengthFilter/lengthFilter.C:116:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthFilter: Saved "uint32FMTW(8)" matches with total length "uint32FMTW(10)", %7.3f%% of the sequence in matches.\n", ^ atac-driver/lengthFilter/lengthFilter.C:116:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthFilter: Saved "uint32FMTW(8)" matches with total length "uint32FMTW(10)", %7.3f%% of the sequence in matches.\n", ^ atac-driver/lengthFilter/lengthFilter.C: In function 'void readHeader(char*, FILE*, uint32&, FILE*)': atac-driver/lengthFilter/lengthFilter.C:34:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, in); ~~~~~^~~~~~~~~~~~~~~~~~ atac-driver/lengthFilter/lengthFilter.C:53:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, in); ~~~~~^~~~~~~~~~~~~~~~~~ atac-driver/lengthFilter/lengthFilter.C: In function 'int main(int, char**)': atac-driver/lengthFilter/lengthFilter.C:111:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, stdin); ~~~~~^~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/lengthFilter/lengthFilter atac-driver/lengthFilter/lengthFilter.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/matchExtender/matchExtender.o -c atac-driver/matchExtender/matchExtender.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/matchExtender/matchExtender.C:27: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/matchExtender/matchExtender.C:27: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/matchExtender/matchExtender.C:27: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/matchExtender/matchExtender.C:27: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/matchExtender/matchExtender.C:27: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/matchExtender/matchExtender.C:27: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/matchExtender.C:27: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/matchExtender.C:27: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/matchExtender/matchExtender.C:192:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:201:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/matchExtender/matchExtender-dump.o -c atac-driver/matchExtender/matchExtender-dump.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/matchExtender/matchExtender-dump.C:25: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-dump.C:25: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-dump.C:25: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-dump.C:25: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/matchExtender/match.H:8, from atac-driver/matchExtender/matchExtender-dump.C:26: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/matchExtender/match.H:8, from atac-driver/matchExtender/matchExtender-dump.C:26: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/match.H:8, from atac-driver/matchExtender/matchExtender-dump.C:26: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/match.H:8, from atac-driver/matchExtender/matchExtender-dump.C:26: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/matchExtender/matchExtender-dump.C:31:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s: ID:%s range1:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT")\n", ^ atac-driver/matchExtender/matchExtender-dump.C:31:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s: ID:%s range1:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT")\n", ^ atac-driver/matchExtender/matchExtender-dump.C:31:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s: ID:%s range1:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT")\n", ^ atac-driver/matchExtender/matchExtender-dump.C:31:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s: ID:%s range1:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT")\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/matchExtender/matchExtender-func.o -c atac-driver/matchExtender/matchExtender-func.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/matchExtender/matchExtender-func.C:26: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-func.C:26: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-func.C:26: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-func.C:26: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/matchExtender/matchExtender-func.C:27: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/matchExtender/matchExtender-func.C:27: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/matchExtender-func.C:27: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/matchExtender-func.C:27: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/matchExtender/matchExtender atac-driver/matchExtender/matchExtender.o atac-driver/matchExtender/matchExtender-dump.o atac-driver/matchExtender/matchExtender-func.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/mismatchCounter/mismatchCounter.o -c atac-driver/mismatchCounter/mismatchCounter.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/mismatchCounter/mismatchCounter.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/mismatchCounter/mismatchCounter.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/mismatchCounter/mismatchCounter.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/mismatchCounter/mismatchCounter.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/mismatchCounter/mismatchCounter.C:25: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/mismatchCounter/mismatchCounter.C:25: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/mismatchCounter/mismatchCounter.C:25: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/mismatchCounter/mismatchCounter.C:25: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/mismatchCounter/mismatchCounter.C:197:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "globalSequence = "uint32FMT"\n", globalSequence); ^ atac-driver/mismatchCounter/mismatchCounter.C:198:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "globalMismatches = "uint32FMT"\n", globalMismatches); ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/mismatchCounter/mismatchCounter atac-driver/mismatchCounter/mismatchCounter.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/statsGenerator/statsGenerator.o -c atac-driver/statsGenerator/statsGenerator.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/statsGenerator/statsGenerator.C:26: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/statsGenerator/statsGenerator.C:26: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/statsGenerator/statsGenerator.C:26: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/statsGenerator/statsGenerator.C:26: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/statsGenerator/statsGenerator.C:26: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/statsGenerator/statsGenerator.C:26: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/statsGenerator/statsGenerator.C:26: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/statsGenerator/statsGenerator.C:26: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/statsGenerator/statsGenerator.C:91:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "histogram %s "uint32FMT" items %8.3f average %8.3f std.dev.\n", ^ atac-driver/statsGenerator/statsGenerator.C:102:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint64FMT" "uint32FMT"\n", i * _b, _h[i]); ^ atac-driver/statsGenerator/statsGenerator.C:103:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, ">"uint64FMT" "uint32FMT"\n", _m, _l); ^ atac-driver/statsGenerator/statsGenerator.C:103:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, ">"uint64FMT" "uint32FMT"\n", _m, _l); ^ atac-driver/statsGenerator/statsGenerator.C:133:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "plot [0:"uint64FMT"][0:"uint64FMT"] \"%s.%s.histogramdat\" using 2 with lines\n", ^ atac-driver/statsGenerator/statsGenerator.C:133:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "plot [0:"uint64FMT"][0:"uint64FMT"] \"%s.%s.histogramdat\" using 2 with lines\n", ^ atac-driver/statsGenerator/statsGenerator.C:136:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "plot [0:"uint64FMT"][0:"uint64FMT"] \"%s.%s.histogramdat\" using 2 with lines\n", ^ atac-driver/statsGenerator/statsGenerator.C:136:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "plot [0:"uint64FMT"][0:"uint64FMT"] \"%s.%s.histogramdat\" using 2 with lines\n", ^ atac-driver/statsGenerator/statsGenerator.C:172:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength %s "uint64FMT" %s "uint64FMT" # all letters, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:172:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength %s "uint64FMT" %s "uint64FMT" # all letters, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:193:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength %s "uint64FMT" %s "uint64FMT" # ACGT only\n", ^ atac-driver/statsGenerator/statsGenerator.C:193:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength %s "uint64FMT" %s "uint64FMT" # ACGT only\n", ^ atac-driver/statsGenerator/statsGenerator.C:282:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT"\n", (uint64)ifa.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:283:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength "uint64FMT" # sum of lengths of all features\n", ifa.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:285:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT" # after merging overlapping regions\n", (uint64)ifa.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:286:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength "uint64FMT" # sequence covered by a feature, including N\n", ifa.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:287:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength "uint64FMT" # sequence covered by a feature, ACGT only\n", tandemRepeatACGTLength(ifa, offset1, A)); ^ atac-driver/statsGenerator/statsGenerator.C:289:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT" # after merging overlapping regions, only in matches\n", (uint64)mma.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:290:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "inMatches "uint64FMT" # sequence covered by a feature and in a match, including N\n", mma.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:291:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "inMatches "uint64FMT" # sequence covered by a feature and in a match, ACGT only\n", tandemRepeatACGTLength(mma, offset1, A)); ^ atac-driver/statsGenerator/statsGenerator.C:295:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT"\n", (uint64)ifb.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:296:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength "uint64FMT" # sum of lengths of all features\n", ifb.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:298:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT" # after merging overlapping regions\n", (uint64)ifb.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:299:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength "uint64FMT" # sequence covered by a feature, including N\n", ifb.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:300:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength "uint64FMT" # sequence covered by a feature, ACGT only\n", tandemRepeatACGTLength(ifb, offset2, B)); ^ atac-driver/statsGenerator/statsGenerator.C:302:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT" # after merging overlapping regions, only in matches\n", (uint64)mmb.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:303:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "inMatches "uint64FMT" # sequence covered by a feature and in a match, including N\n", mmb.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:304:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "inMatches "uint64FMT" # sequence covered by a feature and in a match, ACGT only\n", tandemRepeatACGTLength(mmb, offset2, B)); ^ atac-driver/statsGenerator/statsGenerator.C:335:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT"\n", (uint64)matches.numberOfMatches()); ^ atac-driver/statsGenerator/statsGenerator.C:337:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "matchLength %s "uint64FMT" %s "uint64FMT" # Sum of lengths of sequence in matches\n", ^ atac-driver/statsGenerator/statsGenerator.C:337:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "matchLength %s "uint64FMT" %s "uint64FMT" # Sum of lengths of sequence in matches\n", ^ atac-driver/statsGenerator/statsGenerator.C:349:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength %s "uint64FMT" %s "uint64FMT" # sequence covered by a match, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:349:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength %s "uint64FMT" %s "uint64FMT" # sequence covered by a match, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:353:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength %s "uint64FMT" %s "uint64FMT" # sequence covered by a match, ACGT only (new)\n", ^ atac-driver/statsGenerator/statsGenerator.C:353:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength %s "uint64FMT" %s "uint64FMT" # sequence covered by a match, ACGT only (new)\n", ^ atac-driver/statsGenerator/statsGenerator.C:409:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint64FMT" "uint32FMT"\n", n, n50[iter-1]); ^ atac-driver/statsGenerator/statsGenerator.C:507:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:507:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:507:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:507:82: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:507:104: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:516:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(label, "chr"uint32FMTW(02)"full", c); ^ atac-driver/statsGenerator/statsGenerator.C:520:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(label, "chr"uint32FMTW(02)"acgt", c); ^ atac-driver/statsGenerator/statsGenerator.C:628:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "runMissingFull %s "uint64FMT" %s "uint64FMT" # sequence in run, not covered, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:628:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "runMissingFull %s "uint64FMT" %s "uint64FMT" # sequence in run, not covered, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:631:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "runMissingFull %s "uint64FMT" %s "uint64FMT" # sequence in run, not covered, ACGT only\n", ^ atac-driver/statsGenerator/statsGenerator.C:631:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "runMissingFull %s "uint64FMT" %s "uint64FMT" # sequence in run, not covered, ACGT only\n", ^ atac-driver/statsGenerator/statsGenerator.C: In function 'void tandemRepeatStats(atacFileStream&, atacFileStream&, atacFile&, seqCache*, seqCache*)': atac-driver/statsGenerator/statsGenerator.C:267:41: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] while ((f = featuresA.nextFeature("tr")) != 0L) ^ atac-driver/statsGenerator/statsGenerator.C:269:41: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] while ((f = featuresB.nextFeature("tr")) != 0L) ^ atac-driver/statsGenerator/statsGenerator.C: In function 'void MappedByChromosome(atacFile&, atacMatchList&, seqCache*, seqCache*, char*)': atac-driver/statsGenerator/statsGenerator.C:99:23: warning: '.histogramdat' directive writing 13 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(filename, "%s.%s.histogramdat", prefix, label); ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/aarch64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output 15 or more bytes (assuming 1038) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:127:23: warning: '.histogram.gnuplot' directive writing 18 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(filename, "%s.%s.histogram.gnuplot", prefix, label); ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/aarch64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output 20 or more bytes (assuming 1043) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:140:23: warning: '%s' directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=] sprintf(filename, "gnuplot < %s.%s.histogram.gnuplot", prefix, label); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:518:32: hist1full[c]->plot(prefix, label); ~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/aarch64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output 30 or more bytes (assuming 1053) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:99:23: warning: '.histogramdat' directive writing 13 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(filename, "%s.%s.histogramdat", prefix, label); ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/aarch64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output 15 or more bytes (assuming 1038) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:127:23: warning: '.histogram.gnuplot' directive writing 18 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(filename, "%s.%s.histogram.gnuplot", prefix, label); ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/aarch64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output 20 or more bytes (assuming 1043) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:140:23: warning: '%s' directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=] sprintf(filename, "gnuplot < %s.%s.histogram.gnuplot", prefix, label); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:522:32: hist1acgt[c]->plot(prefix, label); ~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/aarch64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output 30 or more bytes (assuming 1053) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/statsGenerator/statsGenerator atac-driver/statsGenerator/statsGenerator.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/uniqueFilter/uniqueFilter.o -c atac-driver/uniqueFilter/uniqueFilter.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from atac-driver/uniqueFilter/uniqueFilter.C:23: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from atac-driver/uniqueFilter/uniqueFilter.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from atac-driver/uniqueFilter/uniqueFilter.C:23: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from atac-driver/uniqueFilter/uniqueFilter.C:23: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/uniqueFilter/uniqueFilter.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/uniqueFilter/uniqueFilter.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/uniqueFilter/uniqueFilter.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/uniqueFilter/uniqueFilter.C:24: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:226:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Sorting error -- have negative coverage (axis="uint32FMT" position="uint32FMT")!\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:226:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Sorting error -- have negative coverage (axis="uint32FMT" position="uint32FMT")!\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:236:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "offsetsToCoverage()-- Found "uint64FMT" bases at coverage "uint32FMT" or greater.\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:236:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "offsetsToCoverage()-- Found "uint64FMT" bases at coverage "uint32FMT" or greater.\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:370:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Got fwd intersection on i="uint32FMT" matchNumber="uint32FMT"\n", i, matchNumber); ^ atac-driver/uniqueFilter/uniqueFilter.C:370:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Got fwd intersection on i="uint32FMT" matchNumber="uint32FMT"\n", i, matchNumber); ^ atac-driver/uniqueFilter/uniqueFilter.C:371:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:371:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:371:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:371:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:374:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--key1 beg="uint32FMT" end="uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:374:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--key1 beg="uint32FMT" end="uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:379:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Got rev intersection on i="uint32FMT" matchNumber="uint32FMT"\n", i, matchNumber); ^ atac-driver/uniqueFilter/uniqueFilter.C:379:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Got rev intersection on i="uint32FMT" matchNumber="uint32FMT"\n", i, matchNumber); ^ atac-driver/uniqueFilter/uniqueFilter.C:380:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:380:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:380:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:380:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:383:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--key2 beg="uint32FMT" end="uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:383:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--key2 beg="uint32FMT" end="uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:418:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define D08D2 uint32FMTW(8)" "uint32FMTW(8) ^ atac-driver/uniqueFilter/uniqueFilter.C:419:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:419:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:419:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:419:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:419:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:818:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "match "uint32FMT" is outside the extent!\n", i); ^ atac-driver/uniqueFilter/uniqueFilter.C:828:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:828:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:828:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:828:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:828:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/uniqueFilter/uniqueFilter atac-driver/uniqueFilter/uniqueFilter.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/clumpMaker/clumpMaker.o -c atac-driver/clumpMaker/clumpMaker.C In file included from atac-driver/clumpMaker/clumpMaker.C:4: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/clumpMaker/clumpMaker.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/clumpMaker/clumpMaker.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/clumpMaker/clumpMaker.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/clumpMaker/clumpMaker.C:5: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/clumpMaker/clumpMaker.C:5: /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/clumpMaker/clumpMaker.C:5: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /build/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/clumpMaker/clumpMaker.C:5: /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/clumpMaker/clumpMaker.C:341:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(C.matchuid, "clump"int32FMTW(06), cc); ^ atac-driver/clumpMaker/clumpMaker.C:377:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(hits[mm].match.parentuid, "clump"int32FMTW(06), cc); ^ atac-driver/clumpMaker/clumpMaker.C: In function 'int main(int, char**)': atac-driver/clumpMaker/clumpMaker.C:220:12: warning: variable 'isSorted' set but not used [-Wunused-but-set-variable] bool isSorted = false; ^~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/clumpMaker/clumpMaker atac-driver/clumpMaker/clumpMaker.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_dpaligner.o -c atac-driver/chainer/localalign/GF_ALN_dpaligner.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_local.o -c atac-driver/chainer/localalign/GF_ALN_local.C atac-driver/chainer/localalign/GF_ALN_local.C: In function 'void Align_Recursion(const char*, int, const char*, int, const Trapezoid*, int, int, int, double, int)': atac-driver/chainer/localalign/GF_ALN_local.C:872:15: warning: variable 'indel' set but not used [-Wunused-but-set-variable] int j, mid, indel; ^~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_overlap.o -c atac-driver/chainer/localalign/GF_ALN_overlap.C atac-driver/chainer/localalign/GF_ALN_overlap.C: In function 'void AVLinit()': atac-driver/chainer/localalign/GF_ALN_overlap.C:93:33: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] OutOfMemory("Candidate list"); ^ atac-driver/chainer/localalign/GF_ALN_overlap.C: In function 'AVLnode* NEW(AVLnode*, Candidate*, AVLnode*)': atac-driver/chainer/localalign/GF_ALN_overlap.C:125:37: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] OutOfMemory("Candidate list"); ^ atac-driver/chainer/localalign/GF_ALN_overlap.C: In function 'Local_Overlap* Find_Local_Overlap(int, int, int, int, Local_Segment*, int, int, double)': atac-driver/chainer/localalign/GF_ALN_overlap.C:396:40: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] OutOfMemory("Overlap Trace Array"); ^ atac-driver/chainer/localalign/GF_ALN_overlap.C:662:39: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] OutOfMemory("Overlap descriptor"); ^ atac-driver/chainer/localalign/GF_ALN_overlap.C:614:20: warning: variable 'beg' set but not used [-Wunused-but-set-variable] int best, end, beg; ^~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_loverlapper.o -c atac-driver/chainer/localalign/GF_ALN_loverlapper.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_pieceOlap.o -c atac-driver/chainer/localalign/GF_ALN_pieceOlap.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -I/usr/include/python2.7 -o atac-driver/chainer/localalign/localAlignerInterfacemodule.o -c atac-driver/chainer/localalign/localAlignerInterfacemodule.C atac-driver/chainer/localalign/localAlignerInterfacemodule.C: In function 'PyObject* spam_syntenicSegments(PyObject*, PyObject*)': atac-driver/chainer/localalign/localAlignerInterfacemodule.C:176:18: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] char *Aseq = "undefined"; ^~~~~~~~~~~ atac-driver/chainer/localalign/localAlignerInterfacemodule.C:179:18: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] char *Bseq = "undefined"; ^~~~~~~~~~~ rm -f atac-driver/chainer/localAlignerInterfacemodule.so && g++ -Wl,-z,relro -Wl,-z,now -shared -o atac-driver/chainer/localAlignerInterfacemodule.so atac-driver/chainer/localalign/GF_ALN_dpaligner.o atac-driver/chainer/localalign/GF_ALN_local.o atac-driver/chainer/localalign/GF_ALN_overlap.o atac-driver/chainer/localalign/GF_ALN_loverlapper.o atac-driver/chainer/localalign/GF_ALN_pieceOlap.o atac-driver/chainer/localalign/localAlignerInterfacemodule.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/halign/halign.o -c atac-driver/chainer/halign/halign.C atac-driver/chainer/halign/halign.C: In function 'int diff(const char*, const char*, int, int, int*, int*, int*, int*, int, int, int, int, int, int, int, int, int, EditScript**, EditScript**)': atac-driver/chainer/halign/halign.C:295:9: warning: variable 'cost1' set but not used [-Wunused-but-set-variable] int cost1, cost2; ^~~~~ atac-driver/chainer/halign/halign.C:295:16: warning: variable 'cost2' set but not used [-Wunused-but-set-variable] int cost1, cost2; ^~~~~ atac-driver/chainer/halign/halign.C:345:9: warning: variable 'cost1' set but not used [-Wunused-but-set-variable] int cost1, cost2; ^~~~~ atac-driver/chainer/halign/halign.C:345:16: warning: variable 'cost2' set but not used [-Wunused-but-set-variable] int cost1, cost2; ^~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -I/usr/include/python2.7 -o atac-driver/chainer/halign/halignmodule.o -c atac-driver/chainer/halign/halignmodule.C rm -f atac-driver/chainer/halignmodule.so && g++ -Wl,-z,relro -Wl,-z,now -shared -o atac-driver/chainer/halignmodule.so atac-driver/chainer/halign/halign.o atac-driver/chainer/halign/halignmodule.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/atac-driver/libatac/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chimera/happy-clones-span-clumps.o -c atac-driver/chimera/happy-clones-span-clumps.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from atac-driver/chimera/happy-clones-span-clumps.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from atac-driver/chimera/happy-clones-span-clumps.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from atac-driver/chimera/happy-clones-span-clumps.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from atac-driver/chimera/happy-clones-span-clumps.C:7: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ atac-driver/chimera/happy-clones-span-clumps.C:202:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: increase scaffoldsMax "uint32FMT"\n", scaffoldid); ^ atac-driver/chimera/happy-clones-span-clumps.C:229:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Deleted "uint32FMT" scaffolds with less than 2 clumps.\n", deleted); ^ atac-driver/chimera/happy-clones-span-clumps.C:230:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Remain "uint32FMT" scaffolds with more than 2 clumps.\n", remain); ^ atac-driver/chimera/happy-clones-span-clumps.C:248:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" begin "uint32FMT" end "uint32FMT"\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:248:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" begin "uint32FMT" end "uint32FMT"\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:248:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" begin "uint32FMT" end "uint32FMT"\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:248:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" begin "uint32FMT" end "uint32FMT"\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:255:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and clump "uint32FMT" OVERLAP\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:255:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and clump "uint32FMT" OVERLAP\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:255:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and clump "uint32FMT" OVERLAP\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:263:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and "uint32FMT" confirmed by "uint32FMT" clones.\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:263:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and "uint32FMT" confirmed by "uint32FMT" clones.\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:263:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and "uint32FMT" confirmed by "uint32FMT" clones.\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:263:85: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and "uint32FMT" confirmed by "uint32FMT" clones.\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:449:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s spans clump in scaffold %s,"uint32FMT"\n", ina, A[7], scfa); ^ atac-driver/chimera/happy-clones-span-clumps.C:453:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s spans clump in scaffold %s,"uint32FMT" \n", inb, B[7], scfb); ^ atac-driver/chimera/happy-clones-span-clumps.C:464:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold %s,"uint32FMT" clump "uint32FMT" "uint32FMT" confirmed by %s\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:464:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold %s,"uint32FMT" clump "uint32FMT" "uint32FMT" confirmed by %s\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:464:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold %s,"uint32FMT" clump "uint32FMT" "uint32FMT" confirmed by %s\n", ^ atac-driver/chimera/happy-clones-span-clumps.C: In function 'int main(int, char**)': atac-driver/chimera/happy-clones-span-clumps.C:393:24: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] char *uidmapName = "/project/huref6/assembly/fasta/HUREF6A.info"; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C: In function 'atacClumpCoordTree* buildCoordTree(char*)': atac-driver/chimera/happy-clones-span-clumps.C:313:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inl, 1024, inf); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:340:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inl, 1024, inf); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C: In function 'int main(int, char**)': atac-driver/chimera/happy-clones-span-clumps.C:402:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(L, 1024, F); ~~~~~^~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:409:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(L, 1024, F); ~~~~~^~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:426:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(ina, 1024, inf); chomp(ina); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:427:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inb, 1024, inf); chomp(inb); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:473:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(ina, 1024, inf); chomp(ina); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:474:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inb, 1024, inf); chomp(inb); ~~~~~^~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o atac-driver/chimera/happy-clones-span-clumps atac-driver/chimera/happy-clones-span-clumps.o /build/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/seatac.o -c seatac/seatac.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/seatac.C:4: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/seatac.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/seatac.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/seatac.C:4: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/seatac.C:4: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/seatac.C:201:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "O:"uint32FMTW(7)" S:"uint32FMTW(7)" I:"uint32FMTW(7)" T:"uint32FMTW(7)" (%5.1f%%; %8.3f/sec) Finish in %5.2f seconds.\r", ^ seatac/seatac.C:201:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "O:"uint32FMTW(7)" S:"uint32FMTW(7)" I:"uint32FMTW(7)" T:"uint32FMTW(7)" (%5.1f%%; %8.3f/sec) Finish in %5.2f seconds.\r", ^ seatac/seatac.C:201:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "O:"uint32FMTW(7)" S:"uint32FMTW(7)" I:"uint32FMTW(7)" T:"uint32FMTW(7)" (%5.1f%%; %8.3f/sec) Finish in %5.2f seconds.\r", ^ seatac/seatac.C:201:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "O:"uint32FMTW(7)" S:"uint32FMTW(7)" I:"uint32FMTW(7)" T:"uint32FMTW(7)" (%5.1f%%; %8.3f/sec) Finish in %5.2f seconds.\r", ^ seatac/seatac.C:239:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\n"uint32FMTW(7)" sequences (%5.1f%%; %8.3f/sec) %5.2f seconds.\n", ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/filterObj.H: In member function 'void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)': seatac/filterObj.H:146:21: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seatac/hitMatrix.H:82:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/configuration.o -c seatac/configuration.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/configuration.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/configuration.C:259:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacNumSearchThreads="uint32FMT"\n", _numSearchThreads); ^ seatac/configuration.C:260:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacLoaderHighWaterMark="uint32FMT"\n", _loaderHighWaterMark); ^ seatac/configuration.C:264:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacWriterHighWaterMark="uint32FMT"\n", _writerHighWaterMark); ^ seatac/configuration.C:267:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMaxDiagonal="uint32FMT"\n", _maxDiagonal); ^ seatac/configuration.C:268:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMaxGap="uint32FMT"\n", _maxGap); ^ seatac/configuration.C:269:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacQsOverlap="uint32FMT"\n", _qsOverlap); ^ seatac/configuration.C:270:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacDsOverlap="uint32FMT"\n", _dsOverlap); ^ seatac/configuration.C:271:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMinLength="uint32FMT"\n", _minLength + _merSize); ^ seatac/configuration.C:272:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMerSize="uint32FMT"\n", _merSize); ^ seatac/configuration.C:273:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMerSkip="uint32FMT"\n", _merSkip); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/filterObj.H: In member function 'void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)': seatac/filterObj.H:146:21: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seatac/hitMatrix.H:82:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/encodedQuery.o -c seatac/encodedQuery.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/encodedQuery.C:3: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/encodedQuery.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/encodedQuery.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/encodedQuery.C:3: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/encodedQuery.C:3: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/filterObj.H: In member function 'void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)': seatac/filterObj.H:146:21: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seatac/hitMatrix.H:82:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/hitMatrix.o -c seatac/hitMatrix.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/filterObj.H: In member function 'void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)': seatac/filterObj.H:146:21: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seatac/hitMatrix.H:82:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/thr-search.o -c seatac/thr-search.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/thr-search.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/thr-search.C:3:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] char const *srchGbye = "[%ld] computed: "uint64FMTW(8)" blocked: "uint64FMTW(4)"/"uint64FMTW(4)" encodeTime: %7.2f searchTime: %7.2f processTime: %7.2f\n"; ^ seatac/thr-search.C:3:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] char const *srchGbye = "[%ld] computed: "uint64FMTW(8)" blocked: "uint64FMTW(4)"/"uint64FMTW(4)" encodeTime: %7.2f searchTime: %7.2f processTime: %7.2f\n"; ^ seatac/thr-search.C:3:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] char const *srchGbye = "[%ld] computed: "uint64FMTW(8)" blocked: "uint64FMTW(4)"/"uint64FMTW(4)" encodeTime: %7.2f searchTime: %7.2f processTime: %7.2f\n"; ^ seatac/thr-search.C:130:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint64FMT" Blocked by output (idx = "uint32FMT", outputPos = "uint32FMT").\n", (long)U, idx, outputPos); ^ seatac/thr-search.C:130:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint64FMT" Blocked by output (idx = "uint32FMT", outputPos = "uint32FMT").\n", (long)U, idx, outputPos); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/filterObj.H: In member function 'void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)': seatac/filterObj.H:146:21: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seatac/hitMatrix.H:82:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/thr-loader.o -c seatac/thr-loader.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/thr-loader.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-loader.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-loader.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-loader.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/thr-loader.C:5: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/filterObj.H: In member function 'void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)': seatac/filterObj.H:146:21: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seatac/hitMatrix.H:82:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ seatac/thr-loader.C: In function 'void* loaderThread(void*)': seatac/thr-loader.C:68:21: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/thr-deadlock.o -c seatac/thr-deadlock.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/filterObj.H: In member function 'void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)': seatac/filterObj.H:146:21: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seatac/hitMatrix.H:82:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/hitMatrix-sort.o -c seatac/hitMatrix-sort.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/hitMatrix.H:8, from seatac/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/hitMatrix.H:8, from seatac/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/hitMatrix.H:8, from seatac/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/hitMatrix.H:8, from seatac/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/hitMatrix.H:9, from seatac/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/hitMatrix-sort.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/hitMatrix-sort.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/hitMatrix-sort.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/hitMatrix-sort.C:1: seatac/filterObj.H: In member function 'void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)': seatac/filterObj.H:146:21: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/hitMatrix-sort.C:1: seatac/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seatac/hitMatrix.H:82:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.o -c /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:136:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromFastA()-- hashTable is "uint64FMT"MB\n", _hashTableWords >> 17); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:137:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromFastA()-- buckets is "uint64FMT"MB\n", _bucketsWords >> 17); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:139:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromFastA()-- counts is "uint64FMT"MB\n", _countsWords >> 17); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:239:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:239:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:239:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.o -c /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:27:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- ERROR: requested merSize ("uint32FMT") is different than merSize in meryl database ("uint32FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:27:78: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- ERROR: requested merSize ("uint32FMT") is different than merSize in meryl database ("uint32FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:54:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- tableSizeInEntries "uint64FMT"\n", tableSizeInEntries); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:55:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- count range "uint32FMT"-"uint32FMT"\n", lo, hi); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:55:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- count range "uint32FMT"-"uint32FMT"\n", lo, hi); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:104:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- numberOfMers "uint64FMT"\n", numberOfMers); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:116:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- Found "uint64FMT" mers between count of "uint32FMT" and "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:116:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- Found "uint64FMT" mers between count of "uint32FMT" and "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:116:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- Found "uint64FMT" mers between count of "uint32FMT" and "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:135:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- hashTable is "uint64FMT"MB\n", _hashTableWords >> 17); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:136:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- buckets is "uint64FMT"MB\n", _bucketsWords >> 17); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:138:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- counts is "uint64FMT"MB\n", _countsWords >> 17); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.o -c /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:136:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromSequence()-- hashTable is "uint64FMT"MB\n", _hashTableWords >> 17); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:137:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromSequence()-- buckets is "uint64FMT"MB\n", _bucketsWords >> 17); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:139:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromSequence()-- counts is "uint64FMT"MB\n", _countsWords >> 17); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:239:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:239:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:239:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/existDB-state.o -c /build/kmer-0~20150903+r2013/libkmer/existDB-state.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:169:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "merSizeInBases: "uint32FMT"\n", _merSizeInBases); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:170:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "tableBits "uint32FMT"\n", 2 * _merSizeInBases - _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:172:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_hashTableWords "uint64FMT" ("uint64FMT" KB)\n", _hashTableWords, _hashTableWords >> 7); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:172:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_hashTableWords "uint64FMT" ("uint64FMT" KB)\n", _hashTableWords, _hashTableWords >> 7); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:173:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_bucketsWords "uint64FMT" ("uint64FMT" KB)\n", _bucketsWords, _bucketsWords >> 7); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:173:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_bucketsWords "uint64FMT" ("uint64FMT" KB)\n", _bucketsWords, _bucketsWords >> 7); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:174:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_countsWords "uint64FMT" ("uint64FMT" KB)\n", _countsWords, _countsWords >> 7); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:174:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_countsWords "uint64FMT" ("uint64FMT" KB)\n", _countsWords, _countsWords >> 7); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:176:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_shift1: "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:177:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_shift2 "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:178:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_mask1 "uint64HEX"\n", _mask1); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:179:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_mask2 "uint64HEX"\n", _mask2); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:183:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_hshWidth "uint32FMT"\n", _hshWidth); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:191:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_chkWidth "uint32FMT"\n", _chkWidth); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:199:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_cntWidth "uint32FMT"\n", _cntWidth); ^ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C: In member function 'bool existDB::loadState(const char*, bool, bool)': /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:80:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(cigam, sizeof(char), 16, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:124:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_merSizeInBases, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:125:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_shift1, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:126:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_shift2, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:127:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_mask1, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:128:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_mask2, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:129:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_hshWidth, sizeof(uint32), 1, F); // only valid if _compressedHash ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:130:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_chkWidth, sizeof(uint32), 1, F); // only valid if _compressedBucket ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:131:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_cntWidth, sizeof(uint32), 1, F); // only valid if _compressedCounts ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:133:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_hashTableWords, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:134:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_bucketsWords, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:135:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&_countsWords, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:148:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(_hashTable, sizeof(uint64), _hashTableWords, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:149:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(_buckets, sizeof(uint64), _bucketsWords, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/existDB-state.C:152:12: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(_counts, sizeof(uint64), _countsWords, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/existDB.o -c /build/kmer-0~20150903+r2013/libkmer/existDB.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /build/kmer-0~20150903+r2013/libkmer/existDB.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libkmer/existDB.C:44:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::existDB()-- Got "uint32FMT", expected "uint32FMT"\n", _merSizeInBases, merSize); ^ /build/kmer-0~20150903+r2013/libkmer/existDB.C:44:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::existDB()-- Got "uint32FMT", expected "uint32FMT"\n", _merSizeInBases, merSize); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/positionDB-access.o -c /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:2: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:22:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::get()-- Can't allocate space for more positions, requested "uint64FMT" uint64's.\n", posnMax); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:215:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtering out kmers less than "uint64FMT" and more than "uint64FMT"\n", lo, hi); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:215:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtering out kmers less than "uint64FMT" and more than "uint64FMT"\n", lo, hi); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:339:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtered "uint64FMT" kmers less than "uint64FMT"\n", loCount, lo); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:339:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtered "uint64FMT" kmers less than "uint64FMT"\n", loCount, lo); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:340:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtered "uint64FMT" kmers more than "uint64FMT"\n", hiCount, hi); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:340:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtered "uint64FMT" kmers more than "uint64FMT"\n", hiCount, hi); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:341:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Saved "uint64FMT" kmers with acceptable count\n", okCount); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C: In member function 'void positionDB::filter(uint64, uint64)': /build/kmer-0~20150903+r2013/libkmer/positionDB-access.C:204:11: warning: unused variable 'vv' [-Wunused-variable] uint64 vv; ^~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.o -c /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:25:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "B "uint64FMT" "uint64FMT"-"uint64FMT"\n", h, st, ed); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:25:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "B "uint64FMT" "uint64FMT"-"uint64FMT"\n", h, st, ed); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:25:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "B "uint64FMT" "uint64FMT"-"uint64FMT"\n", h, st, ed); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:32:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c chk="uint64HEX" pos="uint64FMT" siz="uint64FMT, ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:32:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c chk="uint64HEX" pos="uint64FMT" siz="uint64FMT, ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:32:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c chk="uint64HEX" pos="uint64FMT" siz="uint64FMT, ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:40:22: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, " "uint64FMT, getDecodedValue(_positions, pos, _posnWidth)); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/positionDB-file.o -c /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:197:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "merSizeInBases: "uint32FMT"\n", _merSizeInBases); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:198:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "merSkipInBases: "uint32FMT"\n", _merSkipInBases); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:199:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "tableSizeInBits: "uint32FMT"\n", _tableSizeInBits); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:200:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "tableSizeInEntries: "uint64FMT"\n", _tableSizeInEntries); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:201:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "hashWidth: "uint32FMT"\n", _hashWidth); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:202:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "chckWidth: "uint32FMT"\n", _chckWidth); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:203:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "posnWidth: "uint32FMT"\n", _posnWidth); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:204:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfMers: "uint64FMT"\n", _numberOfMers); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:205:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfPositions: "uint64FMT"\n", _numberOfPositions); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:206:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfDistinct: "uint64FMT"\n", _numberOfDistinct); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:207:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfUnique: "uint64FMT"\n", _numberOfUnique); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:208:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfEntries: "uint64FMT"\n", _numberOfEntries); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:209:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "maximumEntries: "uint64FMT"\n", _maximumEntries); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C: In member function 'void positionDB::saveState(const char*)': /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:63:73: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] _hashTable_FW = (uint32 *)((_hashTable_FW) ? uint32ONE : uint32ZERO); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:37:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(F, magic, sizeof(char) * 16); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:39:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(F, faild, sizeof(char) * 16); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/positionDB-file.C:95:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(F, magic, sizeof(char) * 16); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.o -c /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:324:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::getUpToNMismatches()-- Can't allocate space for initial positions, requested "uint64FMT" uint64's.\n", posnMax); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.o -c /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:37:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: Bucket "uint64FMT" starts at "uint64FMT" ends at "uint64FMT"?\n", b, st, ed); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:37:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: Bucket "uint64FMT" starts at "uint64FMT" ends at "uint64FMT"?\n", b, st, ed); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:37:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: Bucket "uint64FMT" starts at "uint64FMT" ends at "uint64FMT"?\n", b, st, ed); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:78:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: unset posn bucket="uint64FMT" t="int64FMT" le="uint32FMT"\n", b, t, le); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:78:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: unset posn bucket="uint64FMT" t="int64FMT" le="uint32FMT"\n", b, t, le); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:78:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: unset posn bucket="uint64FMT" t="int64FMT" le="uint32FMT"\n", b, t, le); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:86:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(4)"] chck="uint64HEX" posn="uint64FMT"\n", t, _sortedChck[t], _sortedPosn[t]); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:86:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(4)"] chck="uint64HEX" posn="uint64FMT"\n", t, _sortedChck[t], _sortedPosn[t]); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:77: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/positionDB.o -c /build/kmer-0~20150903+r2013/libkmer/positionDB.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/positionDB.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/positionDB.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libkmer/positionDB.C:7: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:46:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but mer size is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:46:107: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but mer size is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:52:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but mer skip is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:52:107: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but mer skip is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:58:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but max number of mismatches is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:58:123: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but max number of mismatches is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:127:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " sm = "uint64FMT"\n", sm); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:128:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " lg = "uint64FMT"\n", lg); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:129:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " merSize = "uint32FMT" bits\n", 2 * merSize); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:130:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " approxMers = "uint64FMT" mers\n", approxMers); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:131:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " posnWidth = "uint64FMT" bits\n", posnWidth); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:142:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "potential configurations for approximately "uint64FMT" "uint32FMT"-mers (posnW="uint64FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:142:77: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "potential configurations for approximately "uint64FMT" "uint32FMT"-mers (posnW="uint64FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:142:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "potential configurations for approximately "uint64FMT" "uint32FMT"-mers (posnW="uint64FMT").\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:200:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint64FMTW(2)" shifts="uint32FMTW(02)","uint32FMTW(02)" -- size %8.3fGB -- work %8.3f%s\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:200:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint64FMTW(2)" shifts="uint32FMTW(02)","uint32FMTW(02)" -- size %8.3fGB -- work %8.3f%s\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:200:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint64FMTW(2)" shifts="uint32FMTW(02)","uint32FMTW(02)" -- size %8.3fGB -- work %8.3f%s\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:217:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:217:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:217:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:217:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:217:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:217:122: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:326:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- bktAlloc = new uint64 ["uint64FMT"]\n", _tableSizeInEntries / 2 + 4); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:348:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated bucket size counting space with total size "uint64FMT" KB\n", _tableSizeInEntries >> 8); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:392:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Found "uint64FMT" mers (max position = "uint64FMT")\n", _numberOfMers, _numberOfPositions); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:392:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Found "uint64FMT" mers (max position = "uint64FMT")\n", _numberOfMers, _numberOfPositions); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:430:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMT"KB for buckets ("uint64FMT" 64-bit words)\n", bucketsSpace >> 7, bucketsSpace); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:430:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMT"KB for buckets ("uint64FMT" 64-bit words)\n", bucketsSpace >> 7, bucketsSpace); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:435:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- _countingBuckets = new uint64 ["uint64FMT"]\n", bucketsSpace); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:553:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Sorting and repacking buckets ("uint64FMT" buckets).\n", _tableSizeInEntries); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:565:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" total mers\n" ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:566:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" distinct mers\n" ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:567:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" unique mers\n" ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:568:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Need "uint64FMT" non-unique position list entries ("uint64FMT" maximum count)\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:568:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Need "uint64FMT" non-unique position list entries ("uint64FMT" maximum count)\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:637:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for hash table ("uint64FMT" 64-bit words)\n", hs >> 7, hs); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:637:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for hash table ("uint64FMT" 64-bit words)\n", hs >> 7, hs); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:643:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- _hashTable_BP = new uint64 ["uint64FMT"]\n", hs); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:662:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Reusing bucket space; Have: "uint64FMT" Need: "uint64FMT" (64-bit words)\n", bucketsSpace, bs); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:662:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Reusing bucket space; Have: "uint64FMT" Need: "uint64FMT" (64-bit words)\n", bucketsSpace, bs); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:669:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for buckets ("uint64FMT" 64-bit words)\n", bs >> 7, bs); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:669:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for buckets ("uint64FMT" 64-bit words)\n", bs >> 7, bs); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:674:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- _buckets = new uint64 ["uint64FMT"]\n", bs); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:680:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for positions ("uint64FMT" 64-bit words)\n", ps >> 7, ps); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:680:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for positions ("uint64FMT" 64-bit words)\n", ps >> 7, ps); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:685:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- _positions = new uint64 ["uint64FMT"\n", ps); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:695:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Transferring to final structure ("uint64FMT" buckets).\n", _tableSizeInEntries); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:878:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- ERROR: Got position "uint64FMT", but only "uint64FMT" available!\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:878:78: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- ERROR: Got position "uint64FMT", but only "uint64FMT" available!\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:916:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Avail: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (64-bit words)\n", bs, ps); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:916:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Avail: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (64-bit words)\n", bs, ps); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:917:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Avail: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (entries)\n", _numberOfDistinct, _numberOfEntries); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:917:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Avail: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (entries)\n", _numberOfDistinct, _numberOfEntries); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:918:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Used: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (64-bit words)\n", currentBbit / 64, currentPbit / 64); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:918:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Used: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (64-bit words)\n", currentBbit / 64, currentPbit / 64); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:928:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Used: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (entries)\n", _numberOfDistinct, _numberOfEntries); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:928:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Used: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (entries)\n", _numberOfDistinct, _numberOfEntries); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:930:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" total mers\n" ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:931:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" distinct mers\n" ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:932:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" unique mers\n" ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:933:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Need "uint64FMT" non-unique position list entries ("uint64FMT" maximum count)\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:933:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Need "uint64FMT" non-unique position list entries ("uint64FMT" maximum count)\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:955:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Rebuilding the hash table, from "uint32FMT" bits wide to "uint32FMT" bits wide.\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:955:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Rebuilding the hash table, from "uint32FMT" bits wide to "uint32FMT" bits wide.\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:990:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Loading "uint64FMT" mercounts.\n", counts->numberOfDistinctMers()); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:1013:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Loaded "uint64FMT" mercounts; largest is "uint64FMT".\n", countsLoaded, largestMerylCount); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:1013:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Loaded "uint64FMT" mercounts; largest is "uint64FMT".\n", countsLoaded, largestMerylCount); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:1017:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Compress sizes from "uint32FMT" bits to "uint32FMT" bits.\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:1017:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Compress sizes from "uint32FMT" bits to "uint32FMT" bits.\n", ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.C: In member function 'void positionDB::build(merStream*, existDB*, existDB*, merylStreamReader*, uint32, uint32, bool)': /build/kmer-0~20150903+r2013/libkmer/positionDB.C:324:17: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:433:17: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:641:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:672:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ /build/kmer-0~20150903+r2013/libkmer/positionDB.C:683:17: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ rm -f /build/kmer-0~20150903+r2013/libkmer/libkmer.a && ar ruvs /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.o /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.o /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.o /build/kmer-0~20150903+r2013/libkmer/existDB-state.o /build/kmer-0~20150903+r2013/libkmer/existDB.o /build/kmer-0~20150903+r2013/libkmer/positionDB-access.o /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.o /build/kmer-0~20150903+r2013/libkmer/positionDB-file.o /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.o /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.o /build/kmer-0~20150903+r2013/libkmer/positionDB.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /build/kmer-0~20150903+r2013/libkmer/libkmer.a a - /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.o a - /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.o a - /build/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.o a - /build/kmer-0~20150903+r2013/libkmer/existDB-state.o a - /build/kmer-0~20150903+r2013/libkmer/existDB.o a - /build/kmer-0~20150903+r2013/libkmer/positionDB-access.o a - /build/kmer-0~20150903+r2013/libkmer/positionDB-dump.o a - /build/kmer-0~20150903+r2013/libkmer/positionDB-file.o a - /build/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.o a - /build/kmer-0~20150903+r2013/libkmer/positionDB-sort.o a - /build/kmer-0~20150903+r2013/libkmer/positionDB.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libmeryl/libmeryl.o -c /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libmeryl/libmeryl.H:4, from /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libmeryl/libmeryl.H:4, from /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libmeryl/libmeryl.H:4, from /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libmeryl/libmeryl.H:4, from /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:72:2: warning: #warning not checking pmagic [-Wcpp] #warning not checking pmagic ^~~~~~~ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:134:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "merylStreamReader()-- ERROR: User requested mersize "uint32FMT" but '%s' is mersize "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:134:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "merylStreamReader()-- ERROR: User requested mersize "uint32FMT" but '%s' is mersize "uint32FMT"\n", ^ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:6:24: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] static char *ImagicV = "merylStreamIv03\n"; ^~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:7:24: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] static char *ImagicX = "merylStreamIvXX\n"; ^~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:8:24: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] static char *DmagicV = "merylStreamDv03\n"; ^~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:9:24: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] static char *DmagicX = "merylStreamDvXX\n"; ^~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:10:24: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] static char *PmagicV = "merylStreamPv03\n"; ^~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:11:24: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] static char *PmagicX = "merylStreamPvXX\n"; ^~~~~~~~~~~~~~~~~~~ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C: In constructor 'merylStreamReader::merylStreamReader(const char*, uint32)': /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:42:11: warning: variable 'Pmagic' set but not used [-Wunused-but-set-variable] char Pmagic[16] = {0}; ^~~~~~ /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C: In member function 'void merylStreamWriter::addMer(uint64, uint32, uint64, uint32, uint32, uint32*)': /build/kmer-0~20150903+r2013/libmeryl/libmeryl.C:469:31: warning: suggest parentheses around '&&' within '||' [-Wparentheses] (prefix <= _thisMerPre) && (mer < _thisMerMer)) { ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ rm -f /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a && ar ruvs /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a a - /build/kmer-0~20150903+r2013/libmeryl/libmeryl.o g++ -Wl,-z,relro -Wl,-z,now -o seatac/seatac seatac/seatac.o seatac/configuration.o seatac/encodedQuery.o seatac/hitMatrix.o seatac/thr-search.o seatac/thr-loader.o seatac/thr-deadlock.o seatac/hitMatrix-sort.o /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/heavychains-driver.o -c seatac/heavychains-driver.C In file included from seatac/heavychains.H:11, from seatac/heavychains-driver.C:24: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from seatac/heavychains-driver.C:24: seatac/heavychains.H: In member function 'double DPTree::matchScore(DPTree::kd_node, Match&)': seatac/heavychains.H:374:19: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( (flo.X() && node[flo.intv].lo <= p.xlo || ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/heavychains.o -c seatac/heavychains.C In file included from seatac/heavychains.H:11, from seatac/heavychains.C:22: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ seatac/heavychains.C:96:22: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr,"HeavyChains: filtering strands "uint32FMT" "uint32FMT" "uint32FMT"\n", iid1, iid2, Plen); ^ seatac/heavychains.C:96:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr,"HeavyChains: filtering strands "uint32FMT" "uint32FMT" "uint32FMT"\n", iid1, iid2, Plen); ^ seatac/heavychains.C:96:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr,"HeavyChains: filtering strands "uint32FMT" "uint32FMT" "uint32FMT"\n", iid1, iid2, Plen); ^ seatac/heavychains.C:164:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "heavychains: out "uint32FMTW(8)" %8d %8d -- "uint32FMTW(8)" %8d %8d\n", ^ seatac/heavychains.C:164:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "heavychains: out "uint32FMTW(8)" %8d %8d -- "uint32FMTW(8)" %8d %8d\n", ^ seatac/heavychains.C:169:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(outF, "M x H"uint64FMT" . %s:"uint32FMT" %d %d %d %s:"uint32FMT" %d %d %d > /hf=%.1f /hr=%.1f\n", ^ seatac/heavychains.C:169:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(outF, "M x H"uint64FMT" . %s:"uint32FMT" %d %d %d %s:"uint32FMT" %d %d %d > /hf=%.1f /hr=%.1f\n", ^ seatac/heavychains.C:169:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(outF, "M x H"uint64FMT" . %s:"uint32FMT" %d %d %d %s:"uint32FMT" %d %d %d > /hf=%.1f /hr=%.1f\n", ^ seatac/heavychains.C:186:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HeavyChains: finished strands "uint32FMTW(8)" "uint32FMTW(8)" maxlen1=%f maxlen2=%f maxScoreFwd=%f maxScoreRef=%f\n", ^ seatac/heavychains.C:186:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HeavyChains: finished strands "uint32FMTW(8)" "uint32FMTW(8)" maxlen1=%f maxlen2=%f maxScoreFwd=%f maxScoreRef=%f\n", ^ In file included from seatac/heavychains.C:22: seatac/heavychains.H: In member function 'double DPTree::matchScore(DPTree::kd_node, Match&)': seatac/heavychains.H:374:19: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( (flo.X() && node[flo.intv].lo <= p.xlo || ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o seatac/heavychains seatac/heavychains-driver.o seatac/heavychains.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/filter-nop.o -c seatac/filter-nop.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seatac/filter-nop.C:9: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seatac/filter-nop.C:10: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seatac/filter-nop.C:10: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seatac/filter-nop.C:10: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seatac/filter-nop.C:67:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:78: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C: In function 'void* construct(char*)': seatac/filter-nop.C:116:16: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] char *seq1 = "UNK"; ^~~~~ seatac/filter-nop.C:117:16: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] char *seq2 = "UNK"; ^~~~~ rm -f seatac/filter-nop.so && g++ -Wl,-z,relro -Wl,-z,now -shared -o seatac/filter-nop.so seatac/filter-nop.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/filter-heavychains.o -c seatac/filter-heavychains.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from seatac/filter-heavychains.C:24: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seatac/filter-heavychains.C:24: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seatac/filter-heavychains.C:24: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seatac/filter-heavychains.C:24: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/filter-heavychains.C:25: seatac/heavychains.H: In member function 'double DPTree::matchScore(DPTree::kd_node, Match&)': seatac/heavychains.H:374:19: warning: suggest parentheses around '&&' within '||' [-Wparentheses] if ( (flo.X() && node[flo.intv].lo <= p.xlo || ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rm -f seatac/filter-heavychains.so && g++ -Wl,-z,relro -Wl,-z,now -shared -o seatac/filter-heavychains.so seatac/filter-heavychains.o seatac/heavychains.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/leaff.o -c leaff/leaff.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/leaff.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/leaff.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/leaff.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/leaff.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/leaff.C:311:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Didn't find sequence with iid '"uint32FMT"'\n", sid); ^ leaff/leaff.C:400:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "G\tseq\t%s:"uint32FMT"\t"uint32FMT"\t%s\n", ^ leaff/leaff.C:400:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "G\tseq\t%s:"uint32FMT"\t"uint32FMT"\t%s\n", ^ leaff/leaff.C:469:22: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(def, "random"uint32FMTW(06), i); ^ leaff/leaff.C:727:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Couldn't read "uint64FMT" bytes from '%s': %s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/blocks.o -c leaff/blocks.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/blocks.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/blocks.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/blocks.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/blocks.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/blocks.C:32:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:32:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:32:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:32:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:40:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:40:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:40:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:40:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:42:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ". "uint32FMT" "uint32FMT" "uint32FMT"\n", s, pos, uint32ZERO); ^ leaff/blocks.C:42:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ". "uint32FMT" "uint32FMT" "uint32FMT"\n", s, pos, uint32ZERO); ^ leaff/blocks.C:42:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ". "uint32FMT" "uint32FMT" "uint32FMT"\n", s, pos, uint32ZERO); ^ leaff/blocks.C: In function 'void dumpBlocks(char*)': leaff/blocks.C:7:16: warning: unused variable 'S' [-Wunused-variable] seqInCore *S = 0L; ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/dups.o -c leaff/dups.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/dups.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/dups.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/dups.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/dups.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/dups.C:26:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT" <-> "uint32FMT"\n", sa->getIID(), sb->getIID()); ^ leaff/dups.C:28:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "COLLISION DETECTED BETWEEN %s:"uint32FMT" AND %s:"uint32FMT"!\nPLEASE REPORT THIS TO bri@walenz.org!\n", ^ leaff/dups.C:28:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "COLLISION DETECTED BETWEEN %s:"uint32FMT" AND %s:"uint32FMT"!\nPLEASE REPORT THIS TO bri@walenz.org!\n", ^ leaff/dups.C:52:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Internal error: found two copies of the same sequence iid ("uint32FMT")!\n", result[idx].i); ^ leaff/dups.C:60:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT":%s\n"uint32FMT":%s\n\n", ^ leaff/dups.C:64:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "COLLISION DETECTED BETWEEN IID "uint32FMT" AND "uint32FMT"!\nPLEASE REPORT THIS TO bri@walenz.org!\n", ^ leaff/dups.C:64:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "COLLISION DETECTED BETWEEN IID "uint32FMT" AND "uint32FMT"!\nPLEASE REPORT THIS TO bri@walenz.org!\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/gc.o -c leaff/gc.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/gc.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/gc.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/gc.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/gc.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/gc.C:68:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/partition.o -c leaff/partition.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/partition.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/partition.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/partition.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/partition.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/partition.C:55:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Failed to partition "uint32FMT"\n", i); ^ leaff/partition.C:62:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s-"uint32FMTW(03)".fasta", prefix, o); ^ leaff/partition.C:77:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Huh? '%s' "uint32FMT" != "uint32FMT"\n", S->header(), S->sequenceLength(), p[i].length); ^ leaff/partition.C:77:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Huh? '%s' "uint32FMT" != "uint32FMT"\n", S->header(), S->sequenceLength(), p[i].length); ^ leaff/partition.C:96:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"]("uint32FMT")", o, sizeP); ^ leaff/partition.C:99:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, " "uint32FMT"("uint32FMT")", p[i].index, p[i].length); ^ leaff/partition.C:99:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, " "uint32FMT"("uint32FMT")", p[i].index, p[i].length); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/simseq.o -c leaff/simseq.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from leaff/simseq.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/stats.o -c leaff/stats.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/stats.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/stats.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/stats.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/stats.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/stats.C:110:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numSeqs "uint32FMT"\n", numSeq); ^ leaff/stats.C:112:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "SPAN (smallest "uint32FMT" largest "uint32FMT")\n", Ls[numSeq-1], Ls[0]); ^ leaff/stats.C:112:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "SPAN (smallest "uint32FMT" largest "uint32FMT")\n", Ls[numSeq-1], Ls[0]); ^ leaff/stats.C:114:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50s[i], l50s[i]); ^ leaff/stats.C:114:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50s[i], l50s[i]); ^ leaff/stats.C:114:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50s[i], l50s[i]); ^ leaff/stats.C:115:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totLen "uint64FMTW(10)"\n", Ss); ^ leaff/stats.C:116:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "refLen "uint64FMTW(10)"\n", Rs); ^ leaff/stats.C:118:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "BASES (smallest "uint32FMT" largest "uint32FMT")\n", Lb[numSeq-1], Lb[0]); ^ leaff/stats.C:118:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "BASES (smallest "uint32FMT" largest "uint32FMT")\n", Lb[numSeq-1], Lb[0]); ^ leaff/stats.C:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50b[i], l50b[i]); ^ leaff/stats.C:120:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50b[i], l50b[i]); ^ leaff/stats.C:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50b[i], l50b[i]); ^ leaff/stats.C:121:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totLen "uint64FMTW(10)"\n", Sb); ^ leaff/stats.C:122:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "refLen "uint64FMTW(10)"\n", Rb); ^ g++ -Wl,-z,relro -Wl,-z,now -o leaff/leaff leaff/leaff.o leaff/blocks.o leaff/dups.o leaff/gc.o leaff/partition.o leaff/simseq.o leaff/stats.o /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/meryl.o -c meryl/meryl.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/args.o -c meryl/args.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/args.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/args.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/args.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/args.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/args.C:26:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "writeString()-- Failed to write string of length "uint32FMT": %s\n", len, strerror(errno)); ^ meryl/args.C: In function 'char* readString(FILE*)': meryl/args.C:40:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&len, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/args.C:50:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(str, sizeof(char), len, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/args.C: In constructor 'merylArgs::merylArgs(const char*)': meryl/args.C:513:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(magic, sizeof(char), 16, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/args.C:521:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(this, sizeof(merylArgs), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/binaryOp.o -c meryl/binaryOp.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.H:4, from meryl/binaryOp.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/binaryOp.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/binaryOp.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/binaryOp.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/binaryOp.C:43:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR - mersize of '%s' is "uint32FMT"\n", args->mergeFiles[0], A->merSize()); ^ meryl/binaryOp.C:44:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR - mersize of '%s' is "uint32FMT"\n", args->mergeFiles[1], B->merSize()); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/build.o -c meryl/build.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/build.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build.C:7: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/build.C:153:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(cmd, "qsub -t 1-"uint64FMT" -cwd -b n -j y -o %s-count-\\$TASK_ID.err %s -N mc%s %s-count.sh", ^ meryl/build.C:156:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(cmd, "qsub -t 1-"uint64FMT" -cwd -b n -j y -o %s-count-\\$TASK_ID.err -N mc%s %s-count.sh", ^ meryl/build.C:238:2: warning: #warning not submitting prepareBatch to grid [-Wcpp] #warning not submitting prepareBatch to grid ^~~~~~~ meryl/build.C:293:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numMersActual = "uint64FMT"\n", args->numMersActual); ^ meryl/build.C:294:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " mersPerBatch = "uint64FMT"\n", args->mersPerBatch); ^ meryl/build.C:295:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " basesPerBatch = "uint64FMT"\n", args->basesPerBatch); ^ meryl/build.C:296:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numBuckets = "uint64FMT" ("uint32FMT" bits)\n", args->numBuckets, args->numBuckets_log2); ^ meryl/build.C:296:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numBuckets = "uint64FMT" ("uint32FMT" bits)\n", args->numBuckets, args->numBuckets_log2); ^ meryl/build.C:297:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " bucketPointerWidth = "uint32FMT"\n", args->bucketPointerWidth); ^ meryl/build.C:298:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " merDataWidth = "uint32FMT"\n", args->merDataWidth); ^ meryl/build.C:305:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:305:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:305:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:305:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:310:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:310:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:310:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:310:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:314:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numMersActual = "uint64FMT"\n", args->numMersActual); ^ meryl/build.C:315:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " mersPerBatch = "uint64FMT"\n", args->mersPerBatch); ^ meryl/build.C:316:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " basesPerBatch = "uint64FMT"\n", args->basesPerBatch); ^ meryl/build.C:317:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numBuckets = "uint64FMT" ("uint32FMT" bits)\n", args->numBuckets, args->numBuckets_log2); ^ meryl/build.C:317:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numBuckets = "uint64FMT" ("uint32FMT" bits)\n", args->numBuckets, args->numBuckets_log2); ^ meryl/build.C:318:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " bucketPointerWidth = "uint32FMT"\n", args->bucketPointerWidth); ^ meryl/build.C:319:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " merDataWidth = "uint32FMT"\n", args->merDataWidth); ^ meryl/build.C:342:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s.batch"uint64FMT".mcdat", args->outputFile, segment); ^ meryl/build.C:346:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found result for batch "uint64FMT" in %s.\n", segment, filename); ^ meryl/build.C:352:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing segment "uint64FMT" of "uint64FMT".\n", segment+1, args->segmentLimit); ^ meryl/build.C:352:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing segment "uint64FMT" of "uint64FMT".\n", segment+1, args->segmentLimit); ^ meryl/build.C:365:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for mer storage ("uint32FMT" bits wide).\n", ^ meryl/build.C:365:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for mer storage ("uint32FMT" bits wide).\n", ^ meryl/build.C:384:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for mer position storage.\n", ^ meryl/build.C:390:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for bucket pointer table ("uint32FMT" bits wide).\n", ^ meryl/build.C:390:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for bucket pointer table ("uint32FMT" bits wide).\n", ^ meryl/build.C:396:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for counting the size of each bucket.\n", args->numBuckets >> 18); ^ meryl/build.C:477:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Releasing "uint64FMT"MB from counting the size of each bucket.\n", args->numBuckets >> 18); ^ meryl/build.C:532:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(batchOutputFile, "%s.batch"uint64FMT, args->outputFile, segment); ^ meryl/build.C:552:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: In segment "uint64FMT"\n", segment); ^ meryl/build.C:553:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Bucket "uint64FMT" (out of "uint64FMT") ends before it starts!\n", ^ meryl/build.C:553:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Bucket "uint64FMT" (out of "uint64FMT") ends before it starts!\n", ^ meryl/build.C:555:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: start="uint64FMT"\n", st); ^ meryl/build.C:556:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: end ="uint64FMT"\n", ed); ^ meryl/build.C:561:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: In segment "uint64FMT"\n", segment); ^ meryl/build.C:562:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Bucket "uint64FMT" (out of "uint64FMT") is HUGE!\n", ^ meryl/build.C:562:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Bucket "uint64FMT" (out of "uint64FMT") is HUGE!\n", ^ meryl/build.C:564:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: start="uint64FMT"\n", st); ^ meryl/build.C:565:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: end ="uint64FMT"\n", ed); ^ meryl/build.C:667:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Segment "uint64FMT" finished.\n", segment); ^ meryl/build.C:705:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s -countbatch "uint64FMT" -o %s\n", args->execName, s, args->outputFile); ^ meryl/build.C:783:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(argv[argc], "%s.batch"uint32FMT, args->outputFile, i); ^ meryl/build.C:807:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s.batch"uint32FMT".mcidx", args->outputFile, i); ^ meryl/build.C:809:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s.batch"uint32FMT".mcdat", args->outputFile, i); ^ meryl/build.C:811:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s.batch"uint32FMT".mcpos", args->outputFile, i); ^ meryl/build.C: In function 'void prepareBatch(merylArgs*)': meryl/build.C:310:23: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'uint64' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/build.C:312:15: estimateMemory(args->merSize, args->numMersActual, args->positionsEnabled)); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/build.C:310:23: warning: format '%lu' expects a matching 'long unsigned int' argument [-Wformat=] meryl/build.C:310:23: warning: format '%lu' expects a matching 'long unsigned int' argument [-Wformat=] meryl/build.C: In function 'void runSegment(merylArgs*, uint64)': meryl/build.C:585:59: warning: 'void bzero(void*, size_t)' clearing an object of type 'class sortedList_t' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] bzero(sortedList, sizeof(sortedList_t) * sortedListLen); ^ meryl/build.C:26:7: note: 'class sortedList_t' declared here class sortedList_t { ^~~~~~~~~~~~ meryl/build.C:412:8: warning: unused variable 'mstring' [-Wunused-variable] char mstring[256]; ^~~~~~~ meryl/build.C: In function 'void build(merylArgs*)': meryl/build.C:769:41: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] arga[argc] = false; argv[argc++] = "meryl-build-merge"; ^~~~~~~~~~~~~~~~~~~ meryl/build.C:770:41: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] arga[argc] = false; argv[argc++] = "-M"; ^~~~ meryl/build.C:771:41: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] arga[argc] = false; argv[argc++] = "merge"; ^~~~~~~ meryl/build.C:775:22: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] argv[argc++] = "-v"; ^~~~ meryl/build.C:780:22: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] argv[argc++] = "-s"; ^~~~ meryl/build.C:787:41: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] arga[argc] = false; argv[argc++] = "-o"; ^~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/build-threads.o -c meryl/build-threads.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/build-threads.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build-threads.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build-threads.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build-threads.C:7: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/dump.o -c meryl/dump.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.H:4, from meryl/dump.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/dump.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/dump.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/dump.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/dump.C:17:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint64FMT"\n%s\n", ^ meryl/dump.C:35:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint64FMT, M->theCount()); ^ meryl/dump.C:37:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, " "uint32FMT, M->getPosition(i)); ^ meryl/dump.C:50:2: warning: #warning make this a test [-Wcpp] #warning make this a test ^~~~~~~ meryl/dump.C:72:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Found "uint64FMT" mers.\n", M->numberOfTotalMers()); ^ meryl/dump.C:73:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Found "uint64FMT" distinct mers.\n", M->numberOfDistinctMers()); ^ meryl/dump.C:74:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Found "uint64FMT" unique mers.\n", M->numberOfUniqueMers()); ^ meryl/dump.C:87:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" mers.\n", M->numberOfTotalMers()); ^ meryl/dump.C:88:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" distinct mers.\n", M->numberOfDistinctMers()); ^ meryl/dump.C:89:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" unique mers.\n", M->numberOfUniqueMers()); ^ meryl/dump.C:91:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Largest mercount is "uint64FMT"; "uint64FMT" mers are too big for histogram.\n", ^ meryl/dump.C:91:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Largest mercount is "uint64FMT"; "uint64FMT" mers are too big for histogram.\n", ^ meryl/dump.C:101:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint64FMT"\t%.4f\t%.4f\n", ^ meryl/dump.C:148:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint32FMT"\t"uint64FMT"\n", d, hist[d]); ^ meryl/dump.C:151:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "huge\t"uint64FMT"\n", histHuge); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/estimate.o -c meryl/estimate.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/estimate.C:4: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/estimate.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/estimate.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/estimate.C:4: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/estimate.C:54:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Can fit "uint64FMT" mers into table with prefix of "uint64FMT" bits, using %.3fMB (%.3fMB for positions)\n", ^ meryl/estimate.C:54:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Can fit "uint64FMT" mers into table with prefix of "uint64FMT" bits, using %.3fMB (%.3fMB for positions)\n", ^ meryl/estimate.C:162:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint64FMT" "uint32FMT"-mers can be computed using "uint64FMT"MB memory.\n", ^ meryl/estimate.C:162:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint64FMT" "uint32FMT"-mers can be computed using "uint64FMT"MB memory.\n", ^ meryl/estimate.C: In function 'uint64 estimateMemory(uint32, uint64, bool)': meryl/estimate.C:77:13: warning: unused variable 'N' [-Wunused-variable] uint64 N = logBaseTwo64(numMers); // Width of the bucket pointer table ^ meryl/estimate.C:73:11: warning: variable 'tMin' set but not used [-Wunused-but-set-variable] uint64 tMin = tMax; ^~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/merge.o -c meryl/merge.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.H:4, from meryl/merge.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/merge.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/merge.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/merge.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/merge.C:14:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR - must have at least two databases (you gave "uint32FMT")!\n", args->mergeFilesLen); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/unaryOp.o -c meryl/unaryOp.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.H:4, from meryl/unaryOp.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/unaryOp.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/unaryOp.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/unaryOp.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ rm -f meryl/libmerylguts.a && ar ruvs meryl/libmerylguts.a meryl/args.o meryl/binaryOp.o meryl/build.o meryl/build-threads.o meryl/dump.o meryl/estimate.o meryl/merge.o meryl/unaryOp.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating meryl/libmerylguts.a a - meryl/args.o a - meryl/binaryOp.o a - meryl/build.o a - meryl/build-threads.o a - meryl/dump.o a - meryl/estimate.o a - meryl/merge.o a - meryl/unaryOp.o g++ -Wl,-z,relro -Wl,-z,now -o meryl/meryl meryl/meryl.o meryl/libmerylguts.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/simple.o -c meryl/simple.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/simple.C:8: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/simple.C:8: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/simple.C:8: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/simple.C:8: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/simple.C:98:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Guessing "uint64FMT" mers in input '%s'\n", numMers, inName); ^ meryl/simple.C:99:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Allocating "uint64FMT"MB for mer storage.\n", numMers * 8 >> 20); ^ meryl/simple.C:129:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" mers in input '%s'\n", theMersLen, inName); ^ g++ -Wl,-z,relro -Wl,-z,now -o meryl/simple meryl/simple.o /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/mapMers.o -c meryl/mapMers.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/mapMers.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/mapMers.C:135:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:135:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:137:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:165:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:165:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:165:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:171:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\tuncovered\n", S->header(), MS->thePositionInSequence()); ^ meryl/mapMers.C:176:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:176:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:176:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:178:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numCovReg: "uint64FMT"\n", numCovReg); ^ meryl/mapMers.C:179:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lenCovReg: "uint64FMT"\n", lenCovReg); ^ meryl/mapMers.C:193:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:193:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:193:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:193:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:193:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C: In function 'int main(int, char**)': meryl/mapMers.C:21:13: warning: variable 'beVerbose' set but not used [-Wunused-but-set-variable] bool beVerbose = false; ^~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o meryl/mapMers meryl/mapMers.o /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/mapMers-depth.o -c meryl/mapMers-depth.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/mapMers-depth.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers-depth.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers-depth.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers-depth.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-z,relro -Wl,-z,now -o meryl/mapMers-depth meryl/mapMers-depth.o /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/kmer-mask.o -c meryl/kmer-mask.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from meryl/kmer-mask.C:4: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from meryl/kmer-mask.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from meryl/kmer-mask.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from meryl/kmer-mask.C:4: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/kmer-mask.C:754:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW"\n", g->thresholdCounts[0][0]); ^ meryl/kmer-mask.C:755:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW"\n", g->thresholdCounts[1][0]); ^ meryl/kmer-mask.C:756:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW"\n", g->thresholdCounts[2][0]); ^ meryl/kmer-mask.C:757:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW"\n", g->thresholdCounts[3][0]); ^ meryl/kmer-mask.C:760:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW" "FW" "FW" "FW"\n", g->thresholdCounts[0][0], g->thresholdCounts[0][1], g->thresholdCounts[0][2], g->thresholdCounts[0][3]); ^ meryl/kmer-mask.C:760:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW" "FW" "FW" "FW"\n", g->thresholdCounts[0][0], g->thresholdCounts[0][1], g->thresholdCounts[0][2], g->thresholdCounts[0][3]); ^ meryl/kmer-mask.C:760:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW" "FW" "FW" "FW"\n", g->thresholdCounts[0][0], g->thresholdCounts[0][1], g->thresholdCounts[0][2], g->thresholdCounts[0][3]); ^ meryl/kmer-mask.C:760:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW" "FW" "FW" "FW"\n", g->thresholdCounts[0][0], g->thresholdCounts[0][1], g->thresholdCounts[0][2], g->thresholdCounts[0][3]); ^ meryl/kmer-mask.C:761:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW" "FW" "FW" "FW"\n", g->thresholdCounts[1][0], g->thresholdCounts[1][1], g->thresholdCounts[1][2], g->thresholdCounts[1][3]); ^ meryl/kmer-mask.C:761:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW" "FW" "FW" "FW"\n", g->thresholdCounts[1][0], g->thresholdCounts[1][1], g->thresholdCounts[1][2], g->thresholdCounts[1][3]); ^ meryl/kmer-mask.C:761:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW" "FW" "FW" "FW"\n", g->thresholdCounts[1][0], g->thresholdCounts[1][1], g->thresholdCounts[1][2], g->thresholdCounts[1][3]); ^ meryl/kmer-mask.C:761:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW" "FW" "FW" "FW"\n", g->thresholdCounts[1][0], g->thresholdCounts[1][1], g->thresholdCounts[1][2], g->thresholdCounts[1][3]); ^ meryl/kmer-mask.C:762:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW" "FW" "FW" "FW"\n", g->thresholdCounts[2][0], g->thresholdCounts[2][1], g->thresholdCounts[2][2], g->thresholdCounts[2][3]); ^ meryl/kmer-mask.C:762:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW" "FW" "FW" "FW"\n", g->thresholdCounts[2][0], g->thresholdCounts[2][1], g->thresholdCounts[2][2], g->thresholdCounts[2][3]); ^ meryl/kmer-mask.C:762:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW" "FW" "FW" "FW"\n", g->thresholdCounts[2][0], g->thresholdCounts[2][1], g->thresholdCounts[2][2], g->thresholdCounts[2][3]); ^ meryl/kmer-mask.C:762:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW" "FW" "FW" "FW"\n", g->thresholdCounts[2][0], g->thresholdCounts[2][1], g->thresholdCounts[2][2], g->thresholdCounts[2][3]); ^ meryl/kmer-mask.C:763:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW" "FW" "FW" "FW"\n", g->thresholdCounts[3][0], g->thresholdCounts[3][1], g->thresholdCounts[3][2], g->thresholdCounts[3][3]); ^ meryl/kmer-mask.C:763:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW" "FW" "FW" "FW"\n", g->thresholdCounts[3][0], g->thresholdCounts[3][1], g->thresholdCounts[3][2], g->thresholdCounts[3][3]); ^ meryl/kmer-mask.C:763:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW" "FW" "FW" "FW"\n", g->thresholdCounts[3][0], g->thresholdCounts[3][1], g->thresholdCounts[3][2], g->thresholdCounts[3][3]); ^ meryl/kmer-mask.C:763:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW" "FW" "FW" "FW"\n", g->thresholdCounts[3][0], g->thresholdCounts[3][1], g->thresholdCounts[3][2], g->thresholdCounts[3][3]); ^ meryl/kmer-mask.C: In member function 'bool fastqRecord::load(FILE*, FILE*)': meryl/kmer-mask.C:69:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(a1, 1024, FASTQ1); chomp(a1); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:70:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(a2, maxLength, FASTQ1); chomp(a2); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:71:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(a3, 1024, FASTQ1); chomp(a3); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:72:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(a4, maxLength, FASTQ1); chomp(a4); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:83:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(b1, 1024, FASTQ2); chomp(b1); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:84:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(b2, maxLength, FASTQ2); chomp(b2); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:85:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(b3, 1024, FASTQ2); chomp(b3); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:86:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(b4, maxLength, FASTQ2); chomp(b4); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o meryl/kmer-mask meryl/kmer-mask.o /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/hitMatrix.o -c seagen/hitMatrix.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/hitMatrix.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.C:642:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:107: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from seagen/searchGENOME.H:25, from seagen/hitMatrix.C:1: seagen/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seagen/hitMatrix.H:126:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/searchGENOME.o -c seagen/searchGENOME.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/searchGENOME.C:4: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/searchGENOME.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/searchGENOME.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/searchGENOME.C:4: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/searchGENOME.C:4: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/searchGENOME.C:4: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seagen/hitMatrix.H:126:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/configuration.o -c seagen/configuration.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/configuration.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/configuration.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/configuration.C:84:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\n"uint32FMTW(7)" sequences in %5.2f seconds, %8.3f per second.\n", nq, tm, nq/tm); ^ In file included from seagen/searchGENOME.H:25, from seagen/configuration.C:1: seagen/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seagen/hitMatrix.H:126:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/encodedQuery.o -c seagen/encodedQuery.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seagen/encodedQuery.H:6, from seagen/encodedQuery.C:3: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/encodedQuery.H:6, from seagen/encodedQuery.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/encodedQuery.H:6, from seagen/encodedQuery.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/encodedQuery.H:6, from seagen/encodedQuery.C:3: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seagen/encodedQuery.C:142:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mersAvail incorrect: Recomputed:"uint32FMT" Real:"uint32FMT"\n", _mersAvail, _r_mersAvail); ^ seagen/encodedQuery.C:142:88: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mersAvail incorrect: Recomputed:"uint32FMT" Real:"uint32FMT"\n", _mersAvail, _r_mersAvail); ^ seagen/encodedQuery.C:152:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- skip["uint32FMTW(4)"] incorrect: Acc:%d Real:%d\n", i, getSkip(i, true), _r_skip[i]); ^ seagen/encodedQuery.C:160:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mers["uint32FMTW(4)"] incorrect: Acc:"uint64HEX" %s Real:"uint64HEX" %s\n", ^ seagen/encodedQuery.C:160:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mers["uint32FMTW(4)"] incorrect: Acc:"uint64HEX" %s Real:"uint64HEX" %s\n", ^ seagen/encodedQuery.C:160:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mers["uint32FMTW(4)"] incorrect: Acc:"uint64HEX" %s Real:"uint64HEX" %s\n", ^ seagen/encodedQuery.C:209:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::addOutput()-- from "uint32FMT" to "uint32FMT" bytes.\n", ^ seagen/encodedQuery.C:209:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::addOutput()-- from "uint32FMT" to "uint32FMT" bytes.\n", ^ seagen/encodedQuery.C: In member function 'void encodedQuery::addOutput(void*, uint32)': seagen/encodedQuery.C:207:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/thr-deadlock.o -c seagen/thr-deadlock.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/thr-deadlock.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/thr-deadlock.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seagen/hitMatrix.H:126:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/thr-loader.o -c seagen/thr-loader.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/thr-loader.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/thr-loader.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/thr-loader.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/thr-loader.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/thr-loader.C:5: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/thr-loader.C:5: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seagen/hitMatrix.H:126:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ seagen/thr-loader.C: In function 'void* loaderThread(void*)': seagen/thr-loader.C:14:17: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/thr-search.o -c seagen/thr-search.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/thr-search.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/thr-search.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seagen/hitMatrix.H:126:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/thr-output.o -c seagen/thr-output.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/thr-output.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/thr-output.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/thr-output.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/thr-output.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/thr-output.C:5: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/thr-output.C:5: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seagen/hitMatrix.H:126:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ seagen/thr-output.C: In function 'void* writerThread(void*, void*)': seagen/thr-output.C:48:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(config._outputFile, query->theOutput(), query->theOutputLength()); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ seagen/thr-output.C:62:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(config._matchCountsFile, str, strlen(str)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/hitMatrix-sort.o -c seagen/hitMatrix-sort.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from seagen/hitMatrix.H:8, from seagen/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/hitMatrix.H:8, from seagen/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/hitMatrix.H:8, from seagen/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/hitMatrix.H:8, from seagen/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/hitMatrix.H:9, from seagen/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/hitMatrix-sort.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64)': seagen/hitMatrix.H:126:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/aHit.o -c seagen/aHit.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/aHit.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/aHit.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/aHit.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/aHit.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seagen/aHit.C:20:14: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:98: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C: In function 'void ahit_readBinary(aHit*, FILE*)': seagen/aHit.C:12:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(a, sizeof(aHit), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o seagen/seagen seagen/hitMatrix.o seagen/searchGENOME.o seagen/configuration.o seagen/encodedQuery.o seagen/thr-deadlock.o seagen/thr-loader.o seagen/thr-search.o seagen/thr-output.o seagen/hitMatrix-sort.o seagen/aHit.o /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/hitConverter.o -c seagen/hitConverter.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/hitConverter.C:3: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/hitConverter.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/hitConverter.C:3: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/hitConverter.C:3: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seagen/hitConverter.C: In function 'void asc2bin(FILE*, FILE*)': seagen/hitConverter.C:39:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(b, 1024, I); ~~~~~^~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o seagen/hitConverter seagen/hitConverter.o seagen/aHit.o /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterEST.o -c seagen/filterEST.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterEST.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterEST.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterEST.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterEST.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterEST.C:7: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/filterEST.C:76:11: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " hits saved:"uint32FMTW(8)"/"uint32FMTW(8)" = %6.3f%%\r", ^ seagen/filterEST.C:76:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " hits saved:"uint32FMTW(8)"/"uint32FMTW(8)" = %6.3f%%\r", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterEST-complicated.o -c seagen/filterEST-complicated.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterEST-complicated.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterEST-complicated.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterEST-complicated.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterEST-complicated.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterEST-complicated.C:7: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/filterEST-complicated.C:67:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] unique: aggressively filtered to "uint32FMT" hits out of "uint32FMT" hits.\n", ^ seagen/filterEST-complicated.C:67:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] unique: aggressively filtered to "uint32FMT" hits out of "uint32FMT" hits.\n", ^ seagen/filterEST-complicated.C:115:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] knee: filtered "uint32FMT" hits down to "uint32FMT" hits using threshold %f\n", ^ seagen/filterEST-complicated.C:115:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] knee: filtered "uint32FMT" hits down to "uint32FMT" hits using threshold %f\n", ^ seagen/filterEST-complicated.C:139:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] uniform: uniform signal strength, saving the first "uint32FMT" hits out of "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:139:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] uniform: uniform signal strength, saving the first "uint32FMT" hits out of "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:174:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] diff: has no clear signal knee, saving the first "uint32FMT" hits out of "uint32FMT" hits, best=%f, worst=%f, largestdiff=%f\n", ^ seagen/filterEST-complicated.C:174:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] diff: has no clear signal knee, saving the first "uint32FMT" hits out of "uint32FMT" hits, best=%f, worst=%f, largestdiff=%f\n", ^ seagen/filterEST-complicated.C:228:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] spike: at "uint32FMT", "uint32FMT" hits saved: thresh=%f, "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:228:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] spike: at "uint32FMT", "uint32FMT" hits saved: thresh=%f, "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:228:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] spike: at "uint32FMT", "uint32FMT" hits saved: thresh=%f, "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:277:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] is an unclassified signal, "uint32FMT" hits saved out of "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:277:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] is an unclassified signal, "uint32FMT" hits saved out of "uint32FMT" hits, best=%f, worst=%f\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/hitReader.o -c seagen/hitReader.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/hitReader.H:7, from seagen/hitReader.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/hitReader.H:8, from seagen/hitReader.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/hitReader.H:8, from seagen/hitReader.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/hitReader.H:8, from seagen/hitReader.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/hitReader.C:1: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ g++ -Wl,-z,relro -Wl,-z,now -o seagen/filterEST seagen/filterEST.o seagen/filterEST-complicated.o seagen/hitReader.o seagen/aHit.o /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterMRNA.o -c seagen/filterMRNA.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterMRNA.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterMRNA.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterMRNA.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterMRNA.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterMRNA.C:7: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/filterMRNA.C:53:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " scores at least %4.2f AND at least "uint32FMT" bases covered are always output\n", MC, ML); ^ g++ -Wl,-z,relro -Wl,-z,now -o seagen/filterMRNA seagen/filterMRNA.o seagen/hitReader.o seagen/aHit.o /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterNULL.o -c seagen/filterNULL.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterNULL.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterNULL.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterNULL.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterNULL.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterNULL.C:2: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ g++ -Wl,-z,relro -Wl,-z,now -o seagen/filterNULL seagen/filterNULL.o seagen/hitReader.o seagen/aHit.o /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filtertest.o -c seagen/filtertest.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/filtertest.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ seagen/filtertest.C:180:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "reading hits "uint32FMT"\r", hitsLen); ^ seagen/filtertest.C:186:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "reading hits "uint32FMT"\n", hitsLen); ^ seagen/filtertest.C:308:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%f %f %f %6.4f %6.4f "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/filtertest.C:308:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%f %f %f %6.4f %6.4f "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/filtertest.C:308:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%f %f %f %6.4f %6.4f "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/filtertest.C:308:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%f %f %f %6.4f %6.4f "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/filtertest.C: In function 'void ahit_readBinary(aHit*, FILE*)': seagen/filtertest.C:39:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(a, sizeof(aHit), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ seagen/filtertest.C: In function 'int main(int, char**)': seagen/filtertest.C:162:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(hitLine, 1024, stdin); ~~~~~^~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o seagen/filtertest seagen/filtertest.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/sortHits.o -c seagen/sortHits.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/sortHits.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/sortHits.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/sortHits.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/sortHits.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seagen/sortHits.C: In member function 'bool aHitReader::readHit(aHit&)': seagen/sortHits.C:52:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buffer, 1024, theFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ seagen/sortHits.C: In member function 'void aHitTemporary::nextHit()': seagen/sortHits.C:119:12: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&hit, sizeof(aHit), 1, theFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o seagen/sortHits seagen/sortHits.o seagen/aHit.o /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterESTsimple.o -c seagen/filterESTsimple.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterESTsimple.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterESTsimple.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterESTsimple.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterESTsimple.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterESTsimple.C:12: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ g++ -Wl,-z,relro -Wl,-z,now -o seagen/filterESTsimple seagen/filterESTsimple.o seagen/hitReader.o seagen/aHit.o /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/cleanPolishes.o -c sim4dbutils/cleanPolishes.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/cleanPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/cleanPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/cleanPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/cleanPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/cleanPolishes.C:178:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "A big intron is one that is at least "uint32FMT"bp long.\n", intronLimit); ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/cleanPolishes sim4dbutils/cleanPolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/fixPolishesIID.o -c sim4dbutils/fixPolishesIID.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/fixPolishesIID.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/fixPolishesIID.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/fixPolishesIID.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/fixPolishesIID.C:7: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/fixPolishesIID sim4dbutils/fixPolishesIID.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/comparePolishes.o -c sim4dbutils/comparePolishes.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/comparePolishes.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/comparePolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/comparePolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/comparePolishes.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/comparePolishes.C:308:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:118: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:145: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:158: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:452:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR! inA="uint32FMT" inB="uint32FMT"\n", inA, inB); ^ sim4dbutils/comparePolishes.C:452:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR! inA="uint32FMT" inB="uint32FMT"\n", inA, inB); ^ sim4dbutils/comparePolishes.C:484:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:156: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:520:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C: In function 'int main(int, char**)': sim4dbutils/comparePolishes.C:74:20: warning: variable 'doGFF3' set but not used [-Wunused-but-set-variable] bool doGFF3; ^~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/s4p_overlap.o -c sim4dbutils/s4p_overlap.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from sim4dbutils/s4p_overlap.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from sim4dbutils/s4p_overlap.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from sim4dbutils/s4p_overlap.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from sim4dbutils/s4p_overlap.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/comparePolishes sim4dbutils/comparePolishes.o sim4dbutils/s4p_overlap.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/convertToAtac.o -c sim4dbutils/convertToAtac.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToAtac.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToAtac.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToAtac.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToAtac.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/convertToAtac.C:279:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:122: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:134: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:122: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:134: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:330:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Fixed "uint32FMT" indel/mismatches.\n", totalFixed); ^ sim4dbutils/convertToAtac.C: In function 'int main(int, char**)': sim4dbutils/convertToAtac.C:241:12: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else] if (e->_estAlignment[aPos] != '-') ^ sim4dbutils/convertToAtac.C:310:16: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else] if (e->_estAlignment[aPos] != '-') ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/convertToAtac sim4dbutils/convertToAtac.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/convertToExtent.o -c sim4dbutils/convertToExtent.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToExtent.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToExtent.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToExtent.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToExtent.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/convertToExtent.C:43:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:88: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:118: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C: In function 'int main(int, char**)': sim4dbutils/convertToExtent.C:59:8: warning: variable 'beVerbose' set but not used [-Wunused-but-set-variable] bool beVerbose = false; ^~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/convertToExtent sim4dbutils/convertToExtent.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/convertPolishes.o -c sim4dbutils/convertPolishes.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/convertPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertPolishes.C:8: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertPolishes.C:8: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertPolishes.C:8: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/convertPolishes sim4dbutils/convertPolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/detectChimera.o -c sim4dbutils/detectChimera.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/detectChimera.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/detectChimera.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/detectChimera.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/detectChimera.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/detectChimera.C:129:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)"-"uint32FMTW(3)" %s%s ("uint32FMT","uint32FMT")\n", ^ sim4dbutils/detectChimera.C:129:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)"-"uint32FMTW(3)" %s%s ("uint32FMT","uint32FMT")\n", ^ sim4dbutils/detectChimera.C:129:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)"-"uint32FMTW(3)" %s%s ("uint32FMT","uint32FMT")\n", ^ sim4dbutils/detectChimera.C:153:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "first "uint32FMT" alignments.\n", maxPts); ^ sim4dbutils/detectChimera.C: In function 'int main(int, char**)': sim4dbutils/detectChimera.C:19:10: warning: variable 'beVerbose' set but not used [-Wunused-but-set-variable] bool beVerbose = false; ^~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/detectChimera sim4dbutils/detectChimera.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/depthOfPolishes.o -c sim4dbutils/depthOfPolishes.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/depthOfPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/depthOfPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/depthOfPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/depthOfPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/depthOfPolishes.C:103:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/depthOfPolishes sim4dbutils/depthOfPolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/filterPolishes.o -c sim4dbutils/filterPolishes.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/filterPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/filterPolishes.C:8: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/filterPolishes.C:8: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/filterPolishes.C:8: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/filterPolishes.C:178:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering at "uint32FMT"%% coverage and "uint32FMT"%% identity and "uint32FMT"bp.\n", minC, minI, minL); ^ sim4dbutils/filterPolishes.C:178:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering at "uint32FMT"%% coverage and "uint32FMT"%% identity and "uint32FMT"bp.\n", minC, minI, minL); ^ sim4dbutils/filterPolishes.C:178:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering at "uint32FMT"%% coverage and "uint32FMT"%% identity and "uint32FMT"bp.\n", minC, minI, minL); ^ sim4dbutils/filterPolishes.C:181:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering for cDNA idx "uint32FMT" and genomic idx "uint32FMT"\n", cdna, geno); ^ sim4dbutils/filterPolishes.C:181:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering for cDNA idx "uint32FMT" and genomic idx "uint32FMT"\n", cdna, geno); ^ sim4dbutils/filterPolishes.C:183:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering for cDNA idx "uint32FMT".\n", cdna); ^ sim4dbutils/filterPolishes.C:185:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering for genomic idx "uint32FMT".\n", geno); ^ sim4dbutils/filterPolishes.C:259:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed) ("uint64FMT" failed/intractable)\r", ^ sim4dbutils/filterPolishes.C:259:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed) ("uint64FMT" failed/intractable)\r", ^ sim4dbutils/filterPolishes.C:264:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed)\r", ^ sim4dbutils/filterPolishes.C:274:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed) ("uint64FMT" failed/intractable)\n", ^ sim4dbutils/filterPolishes.C:274:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed) ("uint64FMT" failed/intractable)\n", ^ sim4dbutils/filterPolishes.C:279:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed)\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/filterPolishes sim4dbutils/filterPolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/headPolishes.o -c sim4dbutils/headPolishes.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/headPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/headPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/headPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/headPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/headPolishes sim4dbutils/headPolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/mappedCoverage.o -c sim4dbutils/mappedCoverage.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/mappedCoverage.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/mappedCoverage.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/mappedCoverage.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/mappedCoverage.C:7: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/mappedCoverage.C:94:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint32FMT" sequences in the input file.\n", covMax); ^ sim4dbutils/mappedCoverage.C:130:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Found iid "uint32FMT", but only allocated "uint32FMT" places!\n", ^ sim4dbutils/mappedCoverage.C:130:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Found iid "uint32FMT", but only allocated "uint32FMT" places!\n", ^ sim4dbutils/mappedCoverage.C:153:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Found iid "uint32FMT", but only allocated "uint32FMT" places!\n", ^ sim4dbutils/mappedCoverage.C:153:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Found iid "uint32FMT", but only allocated "uint32FMT" places!\n", ^ sim4dbutils/mappedCoverage.C:219:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: range "uint32FMT"-"uint32FMT" out of bounds (seqLen = "uint32FMT")\n", ^ sim4dbutils/mappedCoverage.C:219:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: range "uint32FMT"-"uint32FMT" out of bounds (seqLen = "uint32FMT")\n", ^ sim4dbutils/mappedCoverage.C:219:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: range "uint32FMT"-"uint32FMT" out of bounds (seqLen = "uint32FMT")\n", ^ sim4dbutils/mappedCoverage.C:242:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(C, uint32FMT"\t"uint32FMT"\t%5.3f\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/mappedCoverage.C:242:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(C, uint32FMT"\t"uint32FMT"\t%5.3f\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/mappedCoverage.C:242:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(C, uint32FMT"\t"uint32FMT"\t%5.3f\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/mappedCoverage.C: In function 'int main(int, char**)': sim4dbutils/mappedCoverage.C:106:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, stdin); ~~~~~^~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/mappedCoverage sim4dbutils/mappedCoverage.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/mergePolishes.o -c sim4dbutils/mergePolishes.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/mergePolishes.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/mergePolishes.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/mergePolishes.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/mergePolishes.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/mergePolishes sim4dbutils/mergePolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/parseSNP.o -c sim4dbutils/parseSNP.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/parseSNP.C:9: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/parseSNP.C:10: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/parseSNP.C:10: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/parseSNP.C:10: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/parseSNP.C:229:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:269:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:98: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:113: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:143: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:538:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Polishes not sorted by SNP idx! this="uint32FMT", looking for "uint32FMT"\n", ^ sim4dbutils/parseSNP.C:538:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Polishes not sorted by SNP idx! this="uint32FMT", looking for "uint32FMT"\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/parseSNP sim4dbutils/parseSNP.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/pickBestPolish.o -c sim4dbutils/pickBestPolish.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/pickBestPolish.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPolish.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPolish.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPolish.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/pickBestPolish.C:35:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(4)" "uint32FMTW(4), ^ sim4dbutils/pickBestPolish.C:35:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(4)" "uint32FMTW(4), ^ sim4dbutils/pickBestPolish.C:35:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(4)" "uint32FMTW(4), ^ sim4dbutils/pickBestPolish.C:39:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:39:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:39:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:39:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:39:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:69:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Picking Best for estID="uint32FMT" with %5d choices.\r", p[0]->_estID, pNum); ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/pickBestPolish sim4dbutils/pickBestPolish.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/pickBestPair.o -c sim4dbutils/pickBestPair.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/pickBestPair.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPair.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPair.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPair.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/pickBestPair.C:546:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:584:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(STA, "alignments: "uint32FMT" "uint32FMT"\n", mr1END, mr2END); ^ sim4dbutils/pickBestPair.C:584:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(STA, "alignments: "uint32FMT" "uint32FMT"\n", mr1END, mr2END); ^ sim4dbutils/pickBestPair.C: In function 'int main(int, char**)': sim4dbutils/pickBestPair.C:266:19: warning: variable 'minIdent' set but not used [-Wunused-but-set-variable] double minIdent = 0; ^~~~~~~~ sim4dbutils/pickBestPair.C:267:19: warning: variable 'minLength' set but not used [-Wunused-but-set-variable] double minLength = 0; ^~~~~~~~~ sim4dbutils/pickBestPair.C:268:19: warning: variable 'minCoverage' set but not used [-Wunused-but-set-variable] double minCoverage = 0; ^~~~~~~~~~~ sim4dbutils/pickBestPair.C: In function 'bool readMR(FILE*, mapResult&)': sim4dbutils/pickBestPair.C:54:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:57:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C: In function 'bool readMRcoords(FILE*, mapResult&)': sim4dbutils/pickBestPair.C:123:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:124:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:125:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:126:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:129:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C: In function 'bool readMRcoords(FILE*, mapResult&, bool&)': sim4dbutils/pickBestPair.C:189:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:190:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:191:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:192:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:195:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C: In function 'int main(int, char**)': sim4dbutils/pickBestPair.C:354:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(LL, 10240, IN); ~~~~~^~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:365:14: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(LL, 10240, IN); ~~~~~^~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/pickBestPair sim4dbutils/pickBestPair.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/pickUniquePolish.o -c sim4dbutils/pickUniquePolish.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/pickUniquePolish.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickUniquePolish.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickUniquePolish.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickUniquePolish.C:7: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/pickUniquePolish sim4dbutils/pickUniquePolish.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/plotCoverageVsIdentity.o -c sim4dbutils/plotCoverageVsIdentity.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/plotCoverageVsIdentity.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/plotCoverageVsIdentity.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/plotCoverageVsIdentity.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/plotCoverageVsIdentity.C:7: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/plotCoverageVsIdentity.C:32:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(S, uint32FMT" "uint32FMT"\n", p->_percentIdentity, p->_querySeqIdentity); ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/plotCoverageVsIdentity sim4dbutils/plotCoverageVsIdentity.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/removeDuplicate.o -c sim4dbutils/removeDuplicate.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/removeDuplicate.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/removeDuplicate.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/removeDuplicate.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/removeDuplicate.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/removeDuplicate sim4dbutils/removeDuplicate.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/sortPolishes.o -c sim4dbutils/sortPolishes.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/sortPolishes.C:87:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C:87:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C:87:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C:87:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C:87:125: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C: In function 'sim4polish* savePolish(sim4polish*, uint64*)': sim4dbutils/sortPolishes.C:39:34: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of non-trivially copyable type 'class sim4polish'; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(r, q, sizeof(sim4polish)); ^ In file included from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:99:7: note: 'class sim4polish' declared here class sim4polish { ^~~~~~~~~~ sim4dbutils/sortPolishes.C:59:69: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of non-trivially copyable type 'class sim4polishExon'; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(r->_exons, q->_exons, sizeof(sim4polishExon) * q->_numExons); ^ In file included from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:49:7: note: 'class sim4polishExon' declared here class sim4polishExon { ^~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/sortPolishes sim4dbutils/sortPolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/summarizePolishes.o -c sim4dbutils/summarizePolishes.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/summarizePolishes.C:4: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/summarizePolishes.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/summarizePolishes.C:4: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/summarizePolishes.C:4: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/summarizePolishes.C:167:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numSeqs: "uint32FMT"\n", numSeqs); ^ sim4dbutils/summarizePolishes.C:169:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ids: "uint32FMT" -- ", idLen); ^ sim4dbutils/summarizePolishes.C:171:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " "uint32FMT"", id[i]); ^ sim4dbutils/summarizePolishes.C:173:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "cvs: "uint32FMT" -- ", cvLen); ^ sim4dbutils/summarizePolishes.C:175:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " "uint32FMT"", cv[i]); ^ sim4dbutils/summarizePolishes.C:244:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:244:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:244:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:244:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:244:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:78: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:104: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:125: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/summarizePolishes sim4dbutils/summarizePolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/uniqPolishes.o -c sim4dbutils/uniqPolishes.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/uniqPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/uniqPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/uniqPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/uniqPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/uniqPolishes sim4dbutils/uniqPolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/vennPolishes.o -c sim4dbutils/vennPolishes.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/vennPolishes.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/vennPolishes.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/vennPolishes.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/vennPolishes.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/vennPolishes.C:115:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: You gave me "uint32FMT" files! That's pretty big. I don't know\n", numFiles); ^ sim4dbutils/vennPolishes.C:175:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, " "uint32FMTW(8)" ", counts[index]); ^ sim4dbutils/vennPolishes.C:183:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c = ("uint32FMTW(8)" total) %s\n", 'A' + (char)i, sizes[i], argv[i+numArgs]); ^ sim4dbutils/vennPolishes.C:189:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "] "uint32FMT"\n", counts[index]); ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/vennPolishes sim4dbutils/vennPolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/realignPolishes.o -c sim4dbutils/realignPolishes.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/realignPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/realignPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/realignPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/realignPolishes.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/realignPolishes.C:160:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "MERGE: "uint32FMTW(4)"-"uint32FMTW(4)" (%6.2f,%6.2f) "uint32FMTW(4)"-"uint32FMTW(4) ^ sim4dbutils/realignPolishes.C:160:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "MERGE: "uint32FMTW(4)"-"uint32FMTW(4)" (%6.2f,%6.2f) "uint32FMTW(4)"-"uint32FMTW(4) ^ sim4dbutils/realignPolishes.C:160:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "MERGE: "uint32FMTW(4)"-"uint32FMTW(4)" (%6.2f,%6.2f) "uint32FMTW(4)"-"uint32FMTW(4) ^ sim4dbutils/realignPolishes.C:160:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "MERGE: "uint32FMTW(4)"-"uint32FMTW(4)" (%6.2f,%6.2f) "uint32FMTW(4)"-"uint32FMTW(4) ^ sim4dbutils/realignPolishes.C:161:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " and "uint32FMTW(8)"-"uint32FMTW(8)" (%6.2f,%6.2f) "uint32FMTW(8)"-"uint32FMTW(8)"\n", ^ sim4dbutils/realignPolishes.C:161:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " and "uint32FMTW(8)"-"uint32FMTW(8)" (%6.2f,%6.2f) "uint32FMTW(8)"-"uint32FMTW(8)"\n", ^ sim4dbutils/realignPolishes.C:161:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " and "uint32FMTW(8)"-"uint32FMTW(8)" (%6.2f,%6.2f) "uint32FMTW(8)"-"uint32FMTW(8)"\n", ^ sim4dbutils/realignPolishes.C:161:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " and "uint32FMTW(8)"-"uint32FMTW(8)" (%6.2f,%6.2f) "uint32FMTW(8)"-"uint32FMTW(8)"\n", ^ sim4dbutils/realignPolishes.C:243:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "WARNING: CHANGED! "uint32FMT" -> "uint32FMT"\n", nm, p->_numMatches); ^ sim4dbutils/realignPolishes.C:243:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "WARNING: CHANGED! "uint32FMT" -> "uint32FMT"\n", nm, p->_numMatches); ^ sim4dbutils/realignPolishes.C:248:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(mergeLog, "MERGED\tEST\t"uint32FMT"\tfrom\t%8.3f\t%8.3f\tto\t%8.3f\t%8.3f\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/realignPolishes sim4dbutils/realignPolishes.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/removeRedundant.o -c sim4dbutils/removeRedundant.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/removeRedundant.C:5: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/removeRedundant.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/removeRedundant.C:5: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/removeRedundant.C:5: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/removeRedundant.C:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID="uint32FMTW(8)" -- overlap:"uint32FMT" noOverlap:"uint32FMT"\r", ^ sim4dbutils/removeRedundant.C:107:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID="uint32FMTW(8)" -- overlap:"uint32FMT" noOverlap:"uint32FMT"\r", ^ sim4dbutils/removeRedundant.C:107:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID="uint32FMTW(8)" -- overlap:"uint32FMT" noOverlap:"uint32FMT"\r", ^ sim4dbutils/removeRedundant.C:212:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\nNOT A PERFECT CLIQUE! Found "uint32FMT" overlaps, wanted "uint32FMT" in the clique.\n", ^ sim4dbutils/removeRedundant.C:212:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\nNOT A PERFECT CLIQUE! Found "uint32FMT" overlaps, wanted "uint32FMT" in the clique.\n", ^ sim4dbutils/removeRedundant.C:260:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\nmatches withOvl:"uint32FMT" withoutOvl:"uint32FMT"\n", ^ sim4dbutils/removeRedundant.C:260:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\nmatches withOvl:"uint32FMT" withoutOvl:"uint32FMT"\n", ^ sim4dbutils/removeRedundant.C:262:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "not perfect clique:"uint32FMT"\n", notPerfectClique); ^ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/removeRedundant sim4dbutils/removeRedundant.o sim4dbutils/s4p_overlap.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/reportAlignmentDifferences.o -c sim4dbutils/reportAlignmentDifferences.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/reportAlignmentDifferences.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/reportAlignmentDifferences.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/reportAlignmentDifferences.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /build/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/reportAlignmentDifferences.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/reportAlignmentDifferences.C: In function 'int main(int, char**)': sim4dbutils/reportAlignmentDifferences.C:155:12: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else] if (e->_estAlignment[aPos] != '-') ^ sim4dbutils/reportAlignmentDifferences.C:201:9: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system(gnuCmd); ~~~~~~^~~~~~~~ sim4dbutils/reportAlignmentDifferences.C:200:19: warning: '%s' directive writing up to 4095 bytes into a region of size 4086 [-Wformat-overflow=] sprintf(gnuCmd, "gnuplot < %s", gnuName); ^~~~~~~~~~~~~~ ~~~~~~~ In file included from /usr/include/stdio.h:873, from sim4dbutils/reportAlignmentDifferences.C:1: /usr/include/aarch64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 11 and 4106 bytes into a destination of size 4096 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o sim4dbutils/reportAlignmentDifferences sim4dbutils/reportAlignmentDifferences.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libsim4/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4db/sim4th.o -c sim4db/sim4th.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4db/sim4th.C:34: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4db/sim4th.C:34: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4db/sim4th.C:34: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4db/sim4th.C:34: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4db/sim4th.C:327:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(str, "%s -Y "uint32FMT" "uint32FMT"\n", ^ sim4db/sim4th.C:327:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(str, "%s -Y "uint32FMT" "uint32FMT"\n", ^ sim4db/sim4th.C: In function 'void writer(void*, void*)': sim4db/sim4th.C:316:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(fOutput, o, strlen(o) * sizeof(char)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sim4db/sim4th.C:332:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(fYesNo, str, strlen(str) * sizeof(char)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o sim4db/sim4db sim4db/sim4th.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/snapper2.o -c snapper/snapper2.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/snapper2.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/snapper2.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.C:59:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%6.4f %6.4f %6.4f %6.4f %6.4f "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)"\n", ^ snapper/snapper2.C:59:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%6.4f %6.4f %6.4f %6.4f %6.4f "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)"\n", ^ snapper/snapper2.C:59:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%6.4f %6.4f %6.4f %6.4f %6.4f "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)"\n", ^ snapper/snapper2.C:59:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%6.4f %6.4f %6.4f %6.4f %6.4f "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)"\n", ^ snapper/snapper2.C:248:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Found "uint32FMT" queries shorter than minimum reportable size (-discardexonlength = "uint32FMT")\n", ^ snapper/snapper2.C:248:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Found "uint32FMT" queries shorter than minimum reportable size (-discardexonlength = "uint32FMT")\n", ^ snapper/snapper2.C:254:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Found "uint32FMT" queries longer than maximum size ("uint32FMT")\n", ^ snapper/snapper2.C:254:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Found "uint32FMT" queries longer than maximum size ("uint32FMT")\n", ^ snapper/snapper2.C:295:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Created "uint32FMT" filters (out of "uint32FMT" available) to test/validate.\n", ^ snapper/snapper2.C:295:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Created "uint32FMT" filters (out of "uint32FMT" available) to test/validate.\n", ^ In file included from snapper/snapper2.C:1: snapper/snapper2.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64, uint64)': snapper/snapper2.H:419:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ snapper/snapper2.C: In function 'void writerThread(void*, void*)': snapper/snapper2.C:155:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] write(resultFILE, qry->theOutput, sizeof(char) * qry->theOutputLen); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H: In member function 'void logMsg::write(int, const char*)': /build/kmer-0~20150903+r2013/libutil/logMsg.H:85:12: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)', declared with attribute warn_unused_result [-Wunused-result] ::write(file, _log, sizeof(char) * _logLen); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/configuration.o -c snapper/configuration.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/configuration.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/configuration.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/configuration.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/configuration.C:205:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Invalid afLength "uint32FMT", should be < 64.\n", _afLength), err++; ^ In file included from snapper/configuration.C:1: snapper/snapper2.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64, uint64)': snapper/snapper2.H:419:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/thr-search.o -c snapper/thr-search.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-search.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/thr-search.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/thr-search.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64, uint64)': snapper/snapper2.H:419:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/thr-filter.o -c snapper/thr-filter.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/thr-filter.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-filter.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-filter.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-filter.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/thr-filter.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/thr-filter.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64, uint64)': snapper/snapper2.H:419:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/thr-polish.o -c snapper/thr-polish.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/thr-polish.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/thr-polish.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/thr-polish.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/thr-polish.C:311:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "doPolish()-- Can't reallocate space for the output string ("uint32FMT" bytes) in thread "uint64FMT"\n", qry->theOutputMax, state->threadID); ^ snapper/thr-polish.C:311:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "doPolish()-- Can't reallocate space for the output string ("uint32FMT" bytes) in thread "uint64FMT"\n", qry->theOutputMax, state->threadID); ^ In file included from snapper/thr-polish.C:1: snapper/snapper2.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64, uint64)': snapper/snapper2.H:419:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/thr-polish-dp.o -c snapper/thr-polish-dp.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/thr-polish-dp.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish-dp.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish-dp.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish-dp.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/thr-polish-dp.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/thr-polish-dp.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/thr-polish-dp.C:89:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "dpMatrix-- reallocate to "uint32FMT" x "uint32FMT"\n", aMax, bMax); ^ snapper/thr-polish-dp.C:89:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "dpMatrix-- reallocate to "uint32FMT" x "uint32FMT"\n", aMax, bMax); ^ snapper/thr-polish-dp.C:441:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "doPolish()-- Can't reallocate space for the output string ("uint32FMT" bytes) in thread "uint64FMT"\n", qry->theOutputMax, state->threadID); ^ snapper/thr-polish-dp.C:441:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "doPolish()-- Can't reallocate space for the output string ("uint32FMT" bytes) in thread "uint64FMT"\n", qry->theOutputMax, state->threadID); ^ In file included from snapper/thr-polish-dp.C:1: snapper/snapper2.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64, uint64)': snapper/snapper2.H:419:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/hitMatrix.o -c snapper/hitMatrix.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/hitMatrix.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/hitMatrix.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/hitMatrix.C:385:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT".\n", theHitsPos, theHitsMax); ^ snapper/hitMatrix.C:385:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT".\n", theHitsPos, theHitsMax); ^ In file included from snapper/hitMatrix.C:1: snapper/snapper2.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64, uint64)': snapper/snapper2.H:419:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ snapper/hitMatrix.C: In member function 'void hitMatrix::filter(char, double, uint32, aHit*&, uint32&, uint32&)': snapper/hitMatrix.C:383:23: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/hitMatrix-sort.o -c snapper/hitMatrix-sort.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/hitMatrix-sort.C:1: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/hitMatrix-sort.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H: In member function 'void hitMatrix::addHits(uint32, uint64*, uint64, uint64)': snapper/snapper2.H:419:19: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o snapper/snapper2 snapper/snapper2.o snapper/configuration.o snapper/thr-search.o snapper/thr-filter.o snapper/thr-polish.o snapper/thr-polish-dp.o snapper/hitMatrix.o snapper/hitMatrix-sort.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tagger.o -c tapper/tagger.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from tapper/tapperTag.H:1, from tapper/tagger.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tagger.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tagger.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tagger.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tagger.C:1: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tagger.C:2: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tagger.C:2: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tagger.C:2: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tagger.C:4: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tagger.C:151:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tlength\t"uint32FMT"\n", tagfile, TF->metaData()->tagSize()); ^ tapper/tagger.C:152:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tnumMates\t"uint64FMT"\n", tagfile, TF->numberOfMatePairs()); ^ tapper/tagger.C:153:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tmean\t"uint32FMT"\n", tagfile, TF->metaData()->mean()); ^ tapper/tagger.C:154:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tstddev\t"uint32FMT"\n", tagfile, TF->metaData()->stddev()); ^ tapper/tagger.C:157:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tlength\t"uint32FMT"\n", tagfile, TF->metaData()->tagSize()); ^ tapper/tagger.C:158:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tnumTags\t"uint64FMT"\n", tagfile, TF->numberOfFragmentTags()); ^ tapper/tagger.C:182:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:104: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:191:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:191:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:191:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:191:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:362:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C:362:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C:362:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C:362:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C:362:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C: In function 'bool readTag(uint32, FILE*, FILE*, tapperTag*)': tapper/tagger.C:52:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(seqhdr, 1024, seq); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:54:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(seqhdr, 1024, seq); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:55:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(seqseq, 1024, seq); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:57:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(qlthdr, 1024, qlt); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:59:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(qlthdr, 1024, qlt); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:60:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(qltseq, 1024, qlt); ~~~~~^~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o tapper/tagger tapper/tagger.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tapper.o -c tapper/tapper.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from tapper/tapperTag.H:1, from tapper/tapper.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapper.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapper.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapper.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tapper.C:1: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tapper.C:2: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tapper.C:2: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tapper.C:2: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tapper.C:4: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tapper.C:5: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tapper.C:5: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapper.C:633:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Reallocate t->numHappiesMax to "uint32FMT"\n", t->numHappiesMax); ^ tapper/tapper.C:1048:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultIndex) -- "sizetFMT"\n", sizeof(tapperResultIndex)); ^ tapper/tapper.C:1049:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultQV) -- "sizetFMT"\n", sizeof(tapperResultQV)); ^ tapper/tapper.C:1050:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultFragment) -- "sizetFMT"\n", sizeof(tapperResultFragment)); ^ tapper/tapper.C:1051:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultMated) -- "sizetFMT"\n", sizeof(tapperResultMated)); ^ tapper/tapper.C:1052:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultTangled) -- "sizetFMT"\n", sizeof(tapperResultTangled)); ^ tapper/tapper.C:1053:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperHit) -- "sizetFMT"\n", sizeof(tapperHit)); ^ tapper/tapper.C:1054:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperTag) -- "sizetFMT"\n", sizeof(tapperTag)); ^ tapper/tapper.C:1124:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " all alignments. The default is "uint32FMT".\n", g->repeatThreshold); ^ tapper/tapper.C: In member function 'bool tapperHit::alignToReference(tapperGlobalData*, uint32, uint32, char*, uint32)': tapper/tapper.C:399:43: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare] if (_colorMismatch + _colorInconsistent > g->maxColorError) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ tapper/tapper.C:415:23: warning: comparison of integer expressions of different signedness: 'uint32' {aka 'unsigned int'} and 'int' [-Wsign-compare] for (uint32 ti=0; ti<_len-1; ti++) { ~~^~~~~~~ In file included from /build/kmer-0~20150903+r2013/libutil/recordFile.H:6, from /build/kmer-0~20150903+r2013/libutil/util++.H:39, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapper.C:1: tapper/tapper.C:468:13: warning: comparison of integer expressions of different signedness: 'uint32' {aka 'unsigned int'} and 'int' [-Wsign-compare] assert(nn == _colorMismatch + _colorInconsistent); ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o tapper/tapper tapper/tapper.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tapperconvert.o -c tapper/tapperconvert.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from tapper/tapperTag.H:1, from tapper/tapperconvert.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapperconvert.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapperconvert.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapperconvert.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tapperconvert.C:1: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tapperconvert.C:2: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tapperconvert.C:2: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tapperconvert.C:2: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tapperconvert.C:4: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tapperconvert.C:5: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tapperconvert.C:5: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ g++ -Wl,-z,relro -Wl,-z,now -o tapper/tapperconvert tapper/tapperconvert.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tappermerge.o -c tapper/tappermerge.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from tapper/tapperTag.H:1, from tapper/tappermerge.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tappermerge.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tappermerge.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tappermerge.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tappermerge.C:1: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tappermerge.C:2: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tappermerge.C:2: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tappermerge.C:2: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tappermerge.C:4: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tappermerge.C:5: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tappermerge.C:5: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ g++ -Wl,-z,relro -Wl,-z,now -o tapper/tappermerge tapper/tappermerge.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tappersort.o -c tapper/tappersort.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from tapper/tappersort.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from tapper/tappersort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from tapper/tappersort.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from tapper/tappersort.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tappersort.C:3: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tappersort.C:4: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tappersort.C:4: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tappersort.C:4: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tappersort.C:6: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tappersort.C:7: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tappersort.C:7: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tappersort.C:148:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s."uint32FMTW(03)".tapperAlignment", outputName, outputIndex); ^ tapper/tappersort.C:150:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Writing "uint32FMT" sorted alignments to '%s'\n", aliLen, filename); ^ tapper/tappersort.C:202:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Can fit "uint32FMT" alignments into "uint64FMT" bytes memory; "uint32FMT" bytes each.\n", ^ tapper/tappersort.C:202:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Can fit "uint32FMT" alignments into "uint64FMT" bytes memory; "uint32FMT" bytes each.\n", ^ tapper/tappersort.C:202:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Can fit "uint32FMT" alignments into "uint64FMT" bytes memory; "uint32FMT" bytes each.\n", ^ tapper/tappersort.C:257:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s."uint32FMTW(03)".tapperAlignment", outputName, x); ^ tapper/tappersort.C:299:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s."uint32FMTW(03)".tapperAlignment", outputName, x); ^ g++ -Wl,-z,relro -Wl,-z,now -o tapper/tappersort tapper/tappersort.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libutil/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libkmer/ -I/build/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tappererrorcorrect.o -c tapper/tappererrorcorrect.C In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:4, from tapper/tappererrorcorrect.C:1: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from tapper/tappererrorcorrect.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from tapper/tappererrorcorrect.C:1: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from tapper/tappererrorcorrect.C:1: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tappererrorcorrect.C:3: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tappererrorcorrect.C:4: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tappererrorcorrect.C:4: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tappererrorcorrect.C:4: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tappererrorcorrect.C:6: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tappererrorcorrect.C:7: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tappererrorcorrect.C:7: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tappererrorcorrect.C:25:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block "uint32FMT" has "uint32FMT" things.\n", i, alignsLen[i]); ^ tapper/tappererrorcorrect.C:25:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block "uint32FMT" has "uint32FMT" things.\n", i, alignsLen[i]); ^ tapper/tappererrorcorrect.C:49:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block[0] - seq "uint32FMT" pos "uint32FMT"\n", ^ tapper/tappererrorcorrect.C:49:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block[0] - seq "uint32FMT" pos "uint32FMT"\n", ^ tapper/tappererrorcorrect.C:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block "uint32FMT" has "uint32FMT" things.\n", alignsMax-1, alignsLen[alignsMax-1]); ^ tapper/tappererrorcorrect.C:62:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block "uint32FMT" has "uint32FMT" things.\n", alignsMax-1, alignsLen[alignsMax-1]); ^ tapper/tappererrorcorrect.C:160:2: warning: #warning need the real read size here [-Wcpp] #warning need the real read size here ^~~~~~~ tapper/tappererrorcorrect.C:213:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "\nALIGN "uint32FMT"-"uint32FMT"\n", winLo, winHi); ^ tapper/tappererrorcorrect.C:213:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "\nALIGN "uint32FMT"-"uint32FMT"\n", winLo, winHi); ^ tapper/tappererrorcorrect.C: In function 'int main(int, char**)': tapper/tappererrorcorrect.C:102:13: warning: variable 'memoryLimit' set but not used [-Wunused-but-set-variable] uint64 memoryLimit = 1024 * 1024 * 1024; ^~~~~~~~~~~ tapper/tappererrorcorrect.C:141:21: warning: unused variable 'id' [-Wunused-variable] uint16 id[4]; ^~ g++ -Wl,-z,relro -Wl,-z,now -o tapper/tappererrorcorrect tapper/tappererrorcorrect.o /build/kmer-0~20150903+r2013/libsim4/libsim4.a /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/driver-existDB.o -c /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:53:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer "uint64HEX" not found : e=%d f=%d g=%d\n", m, ee, ef, eg); ^ /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:56:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer "uint64HEX" count differs : e=%u f=%u g=%u (exists=%d)\n", m, ce, cf, cg, ee); ^ /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:65:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer "uint64HEX" : e=%u f=%u g=%u (exists=%d)\n", m, ce, cf, cg, ee); ^ /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:96:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Tried "uint64FMT", didn't find "uint64FMT" merStream mers in the existDB.\n", tried, lost); ^ /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:96:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Tried "uint64FMT", didn't find "uint64FMT" merStream mers in the existDB.\n", tried, lost); ^ /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:128:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" mers in the meryl database.\n", expected); ^ /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:148:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Expected to find "uint64FMT" mers, but found "uint64FMT" instead.\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-existDB.C:148:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Expected to find "uint64FMT" mers, but found "uint64FMT" instead.\n", ^ g++ -Wl,-z,relro -Wl,-z,now -o /build/kmer-0~20150903+r2013/libkmer/existDB /build/kmer-0~20150903+r2013/libkmer/driver-existDB.o /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/build/kmer-0~20150903+r2013/libmeryl/ -I/build/kmer-0~20150903+r2013/libbio/ -I/build/kmer-0~20150903+r2013/libseq/ -I/build/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libkmer/driver-posDB.o -c /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C In file included from /build/kmer-0~20150903+r2013/libbio/bio.h:4, from /build/kmer-0~20150903+r2013/libbio/bio++.H:14, from /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:6: /build/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /build/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /build/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:37, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:38, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:6: /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /build/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /build/kmer-0~20150903+r2013/libutil/util++.H:43, from /build/kmer-0~20150903+r2013/libbio/bio++.H:15, from /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:6: /build/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:8: /build/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /build/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:54:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s @ "uint64FMT"/"uint64FMT": Found "uint64FMT" table entries, and "uint32FMT" matching positions (", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:54:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s @ "uint64FMT"/"uint64FMT": Found "uint64FMT" table entries, and "uint32FMT" matching positions (", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:54:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s @ "uint64FMT"/"uint64FMT": Found "uint64FMT" table entries, and "uint32FMT" matching positions (", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:54:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s @ "uint64FMT"/"uint64FMT": Found "uint64FMT" table entries, and "uint32FMT" matching positions (", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:68:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Found no matches for mer=%s at pos="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:101:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a F match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:101:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a F match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:101:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a F match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:110:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a R match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:110:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a R match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:110:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a R match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:255:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: merbegin="uint64FMT" and merend="uint64FMT" are incompatible.\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:255:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: merbegin="uint64FMT" and merend="uint64FMT" are incompatible.\n", ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:275:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Building table with merSize "uint32FMT", merSkip "uint32FMT"\n", mersize, merskip); ^ /build/kmer-0~20150903+r2013/libkmer/driver-posDB.C:275:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Building table with merSize "uint32FMT", merSkip "uint32FMT"\n", mersize, merskip); ^ g++ -Wl,-z,relro -Wl,-z,now -o /build/kmer-0~20150903+r2013/libkmer/positionDB /build/kmer-0~20150903+r2013/libkmer/driver-posDB.o /build/kmer-0~20150903+r2013/libkmer/libkmer.a /build/kmer-0~20150903+r2013/libmeryl/libmeryl.a /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wl,-z,relro -Wl,-z,now -o /build/kmer-0~20150903+r2013/libseq/test-seqCache /build/kmer-0~20150903+r2013/libseq/test-seqCache.o /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wl,-z,relro -Wl,-z,now -o /build/kmer-0~20150903+r2013/libseq/test-seqStream /build/kmer-0~20150903+r2013/libseq/test-seqStream.o /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wl,-z,relro -Wl,-z,now -o /build/kmer-0~20150903+r2013/libseq/test-merStream /build/kmer-0~20150903+r2013/libseq/test-merStream.o /build/kmer-0~20150903+r2013/libseq/libseq.a /build/kmer-0~20150903+r2013/libbio/libbio.a /build/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /build/kmer-0~20150903+r2013/libutil/mt19937ar/test.o -c /build/kmer-0~20150903+r2013/libutil/mt19937ar/test.c rm -f /build/kmer-0~20150903+r2013/libutil/mt19937ar/libmt19937ar.a && ar ruvs /build/kmer-0~20150903+r2013/libutil/mt19937ar/libmt19937ar.a /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o /build/kmer-0~20150903+r2013/libutil/mt19937ar/test.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /build/kmer-0~20150903+r2013/libutil/mt19937ar/libmt19937ar.a a - /build/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o a - /build/kmer-0~20150903+r2013/libutil/mt19937ar/test.o rm -f /build/kmer-0~20150903+r2013/libutil/kazlib/libkaz.a && ar ruvs /build/kmer-0~20150903+r2013/libutil/kazlib/libkaz.a /build/kmer-0~20150903+r2013/libutil/kazlib/dict.o /build/kmer-0~20150903+r2013/libutil/kazlib/except.o /build/kmer-0~20150903+r2013/libutil/kazlib/hash.o /build/kmer-0~20150903+r2013/libutil/kazlib/list.o /build/kmer-0~20150903+r2013/libutil/kazlib/sfx.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /build/kmer-0~20150903+r2013/libutil/kazlib/libkaz.a a - /build/kmer-0~20150903+r2013/libutil/kazlib/dict.o a - /build/kmer-0~20150903+r2013/libutil/kazlib/except.o a - /build/kmer-0~20150903+r2013/libutil/kazlib/hash.o a - /build/kmer-0~20150903+r2013/libutil/kazlib/list.o a - /build/kmer-0~20150903+r2013/libutil/kazlib/sfx.o make[2]: Leaving directory '/build/kmer-0~20150903+r2013' mv installdir/bin/atac.pl installdir/bin/atac make[1]: Leaving directory '/build/kmer-0~20150903+r2013' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with python2 dh_testroot dh_prep dh_auto_install make -j8 install DESTDIR=/build/kmer-0\~20150903\+r2013/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/kmer-0~20150903+r2013' make[1]: Leaving directory '/build/kmer-0~20150903+r2013' debian/rules override_dh_install make[1]: Entering directory '/build/kmer-0~20150903+r2013' dh_install for perlscript in `grep -l '#!/usr/bin/env \+perl' debian/*/usr/bin/*` `grep -l '#!/usr/bin/env \+perl' debian/*/usr/lib/atac/bin/*` ; do \ sed -i '1s+#!/usr/bin/env perl+#!/usr/bin/perl+' ${perlscript} ; \ done make[1]: Leaving directory '/build/kmer-0~20150903+r2013' dh_installdocs dh_installchangelogs dh_installman dh_python2 I: dh_python2 tools:114: replacing shebang in debian/atac/usr/lib/atac/lib/AtacDriver.py I: dh_python2 tools:114: replacing shebang in debian/atac/usr/lib/atac/lib/AtacFile.py I: dh_python2 tools:114: replacing shebang in debian/atac/usr/lib/atac/lib/MyFile.py I: dh_python2 tools:114: replacing shebang in debian/atac/usr/lib/atac/lib/PerfectRuns.py I: dh_python2 tools:114: replacing shebang in debian/atac/usr/lib/atac/lib/UniqueFilter.py I: dh_python2 tools:114: replacing shebang in debian/atac/usr/lib/atac/lib/dedashMatches.py I: dh_python2 tools:114: replacing shebang in debian/atac/usr/lib/atac/lib/mkstats.py I: dh_python2 tools:114: replacing shebang in debian/atac/usr/lib/atac/bin/AtacDriver.py dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/leaff/usr/bin/leaff was not linked against libdl.so.2 (it uses none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/meryl/usr/bin/positionDB debian/meryl/usr/bin/existDB debian/meryl/usr/bin/simple debian/meryl/usr/bin/kmer-mask debian/meryl/usr/bin/mapMers-depth debian/meryl/usr/bin/mapMers debian/meryl/usr/bin/meryl were not linked against libdl.so.2 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sim4db/usr/bin/sim4db debian/sim4db/usr/bin/convertToAtac debian/sim4db/usr/bin/mergePolishes debian/sim4db/usr/bin/mappedCoverage debian/sim4db/usr/bin/cleanPolishes debian/sim4db/usr/bin/uniqPolishes debian/sim4db/usr/bin/reportAlignmentDifferences debian/sim4db/usr/bin/parseSNP debian/sim4db/usr/bin/plotCoverageVsIdentity debian/sim4db/usr/bin/fixPolishesIID debian/sim4db/usr/bin/comparePolishes debian/sim4db/usr/bin/removeDuplicate debian/sim4db/usr/bin/headPolishes debian/sim4db/usr/bin/vennPolishes debian/sim4db/usr/bin/summarizePolishes debian/sim4db/usr/bin/depthOfPolishes debian/sim4db/usr/bin/pickUniquePolish debian/sim4db/usr/bin/filterPolishes debian/sim4db/usr/bin/detectChimera debian/sim4db/usr/bin/convertPolishes debian/sim4db/usr/bin/convertToExtent debian/sim4db/usr/bin/pickBestPolish debian/sim4db/usr/bin/sortPolishes debian/sim4db/usr/bin/realignPolishes were not linked against libdl.so.2 (they use none of the library's symbols) dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package libkmer-dev: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: Depends field of package libmeryl-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'sim4db-dbgsym' in '../sim4db-dbgsym_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'kmer' in '../kmer_0~20150903+r2013-6_all.deb'. dpkg-deb: building package 'atac-dbgsym' in '../atac-dbgsym_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'leaff-dbgsym' in '../leaff-dbgsym_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'libmeryl-dev' in '../libmeryl-dev_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'meryl' in '../meryl_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'libkmer-dev' in '../libkmer-dev_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'sim4db' in '../sim4db_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'leaff' in '../leaff_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'meryl-dbgsym' in '../meryl-dbgsym_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'atac' in '../atac_0~20150903+r2013-6_arm64.deb'. dpkg-deb: building package 'kmer-examples' in '../kmer-examples_0~20150903+r2013-6_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../kmer_0~20150903+r2013-6_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: user script /srv/workspace/pbuilder/5368/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/5368/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/5368 and its subdirectories I: Current time: Thu Jul 9 05:12:58 +14 2020 I: pbuilder-time-stamp: 1594221178