I: pbuilder: network access will be disabled during build I: Current time: Wed Dec 15 22:53:25 +14 2021 I: pbuilder-time-stamp: 1639558405 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 [sra-sdk_2.9.3+dfsg-1.dsc] I: copying [./sra-sdk_2.9.3+dfsg.orig.tar.xz] I: copying [./sra-sdk_2.9.3+dfsg-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Wed Oct 24 08:38:02 2018 +14 gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1 gpgv: issuer "moeller@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./sra-sdk_2.9.3+dfsg-1.dsc dpkg-source: info: extracting sra-sdk in sra-sdk-2.9.3+dfsg dpkg-source: info: unpacking sra-sdk_2.9.3+dfsg.orig.tar.xz dpkg-source: info: unpacking sra-sdk_2.9.3+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying find_configure_libs.patch dpkg-source: info: applying 10_portability.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying find_hdf5_serial.patch dpkg-source: info: applying find_ngs-sdk.patch dpkg-source: info: applying find_ncbi-vdb.patch dpkg-source: info: applying link_debian_packaged_libz.patch dpkg-source: info: applying link_debian_packaged_lmagic.patch dpkg-source: info: applying dont_use_static_lib.patch dpkg-source: info: applying set_explicit_path_to_schemata.patch dpkg-source: info: applying absolute_vschema_path_in_test.patch dpkg-source: info: applying ignore_failing_tests_for_the_moment.patch dpkg-source: info: applying do_not_link_statically.patch dpkg-source: info: applying link_debian_packaged_libmbed.patch dpkg-source: info: applying seek_dynamic_libs.patch dpkg-source: info: applying certs.kfg.patch dpkg-source: info: applying drop_tests.patch dpkg-source: info: applying ignore_failing_test_for_the_moment_FIXME.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2458349/tmp/hooks/D01_modify_environment starting debug: Running on ionos11-amd64. 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/2458349/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/2458349/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]="x86_64-pc-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=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=82c3eb5a3ca048f0a04aa91a374d3f4f LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-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=2458349 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.mX7gvoXKaP/pbuilderrc_kAFf --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.mX7gvoXKaP/b2 --logfile b2/build.log sra-sdk_2.9.3+dfsg-1.dsc' SUDO_GID=111 SUDO_UID=106 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://78.137.99.97:3128 I: uname -a Linux i-capture-the-hostname 5.10.0-9-amd64 #1 SMP Debian 5.10.70-1 (2021-09-30) x86_64 GNU/Linux I: ls -l /bin total 5116 -rwxr-xr-x 1 root root 1168776 Apr 18 2019 bash -rwxr-xr-x 3 root root 38984 Jul 11 2019 bunzip2 -rwxr-xr-x 3 root root 38984 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 38984 Jul 11 2019 bzip2 -rwxr-xr-x 1 root root 14328 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 43744 Mar 1 2019 cat -rwxr-xr-x 1 root root 64320 Mar 1 2019 chgrp -rwxr-xr-x 1 root root 64288 Mar 1 2019 chmod -rwxr-xr-x 1 root root 72512 Mar 1 2019 chown -rwxr-xr-x 1 root root 146880 Mar 1 2019 cp -rwxr-xr-x 1 root root 121464 Jan 18 2019 dash -rwxr-xr-x 1 root root 109408 Mar 1 2019 date -rwxr-xr-x 1 root root 76712 Mar 1 2019 dd -rwxr-xr-x 1 root root 93744 Mar 1 2019 df -rwxr-xr-x 1 root root 138856 Mar 1 2019 dir -rwxr-xr-x 1 root root 84288 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 39520 Mar 1 2019 echo -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep -rwxr-xr-x 1 root root 35424 Mar 1 2019 false -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep -rwxr-xr-x 1 root root 68880 Jan 10 2019 findmnt -rwsr-xr-x 1 root root 34896 Apr 23 2020 fusermount -rwxr-xr-x 1 root root 198976 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 98048 Jan 6 2019 gzip -rwxr-xr-x 1 root root 26696 Sep 27 2018 hostname -rwxr-xr-x 1 root root 68552 Mar 1 2019 ln -rwxr-xr-x 1 root root 56760 Jul 27 2018 login -rwxr-xr-x 1 root root 138856 Mar 1 2019 ls -rwxr-xr-x 1 root root 108624 Jan 10 2019 lsblk -rwxr-xr-x 1 root root 89088 Mar 1 2019 mkdir -rwxr-xr-x 1 root root 68544 Mar 1 2019 mknod -rwxr-xr-x 1 root root 43808 Mar 1 2019 mktemp -rwxr-xr-x 1 root root 43008 Jan 10 2019 more -rwsr-xr-x 1 root root 51280 Jan 10 2019 mount -rwxr-xr-x 1 root root 14408 Jan 10 2019 mountpoint -rwxr-xr-x 1 root root 138728 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 39616 Mar 1 2019 pwd lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash -rwxr-xr-x 1 root root 47776 Mar 1 2019 readlink -rwxr-xr-x 1 root root 68416 Mar 1 2019 rm -rwxr-xr-x 1 root root 47776 Mar 1 2019 rmdir -rwxr-xr-x 1 root root 23312 Jan 22 2019 run-parts -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Dec 15 22:53 sh -> bash lrwxrwxrwx 1 root root 4 Nov 8 11:58 sh.distrib -> dash -rwxr-xr-x 1 root root 39552 Mar 1 2019 sleep -rwxr-xr-x 1 root root 80672 Mar 1 2019 stty -rwsr-xr-x 1 root root 63568 Jan 10 2019 su -rwxr-xr-x 1 root root 35488 Mar 1 2019 sync -rwxr-xr-x 1 root root 445560 Apr 24 2019 tar -rwxr-xr-x 1 root root 14440 Jan 22 2019 tempfile -rwxr-xr-x 1 root root 97152 Mar 1 2019 touch -rwxr-xr-x 1 root root 35424 Mar 1 2019 true -rwxr-xr-x 1 root root 14328 Apr 23 2020 ulockmgr_server -rwsr-xr-x 1 root root 34888 Jan 10 2019 umount -rwxr-xr-x 1 root root 39584 Mar 1 2019 uname -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress -rwxr-xr-x 1 root root 138856 Mar 1 2019 vdir -rwxr-xr-x 1 root root 34896 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/2458349/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: amd64 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~), libngs-sdk-dev (>= 2.9.0), libncbi-vdb-dev (>= 2.9.1), libvdb-sqlite-dev, libfuse-dev, libhdf5-dev, libmagic-dev, libxml2-dev, python dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19195 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 libngs-sdk-dev (>= 2.9.0); however: Package libngs-sdk-dev is not installed. pbuilder-satisfydepends-dummy depends on libncbi-vdb-dev (>= 2.9.1); however: Package libncbi-vdb-dev is not installed. pbuilder-satisfydepends-dummy depends on libvdb-sqlite-dev; however: Package libvdb-sqlite-dev is not installed. pbuilder-satisfydepends-dummy depends on libfuse-dev; however: Package libfuse-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libmagic-dev; however: Package libmagic-dev is not installed. pbuilder-satisfydepends-dummy depends on libxml2-dev; however: Package libxml2-dev is not installed. pbuilder-satisfydepends-dummy depends on python; however: Package python 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-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} hdf5-helpers{a} icu-devtools{a} intltool-debian{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libbsd0{a} libbz2-dev{a} libcroco3{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfuse-dev{a} libgfortran5{a} libglib2.0-0{a} libhdf5-103{a} libhdf5-cpp-103{a} libhdf5-dev{a} libicu-dev{a} libicu63{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libkdf5-2{a} libkdf5-dev{a} libmagic-dev{a} libmagic-mgc{a} libmagic1{a} libmbedcrypto3{a} libmbedtls-dev{a} libmbedtls12{a} libmbedx509-0{a} libncbi-vdb-dev{a} libncbi-vdb2{a} libncbi-wvdb-dev{a} libncbi-wvdb2{a} libncurses6{a} libngs-sdk-dev{a} libngs-sdk2{a} libpcre16-3{a} libpcre3-dev{a} libpcre32-3{a} libpcrecpp0v5{a} libpipeline1{a} libpython-stdlib{a} libpython2-stdlib{a} libpython2.7-minimal{a} libpython2.7-stdlib{a} libreadline7{a} libselinux1-dev{a} libsepol1-dev{a} libsigsegv2{a} libssl1.1{a} libsz2{a} libtool{a} libuchardet0{a} libvdb-sqlite-dev{a} libvdb-sqlite2{a} libxml2{a} libxml2-dev{a} m4{a} man-db{a} mime-support{a} po-debconf{a} python{a} python-minimal{a} python2{a} python2-minimal{a} python2.7{a} python2.7-minimal{a} readline-common{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 86 newly installed, 0 to remove and 0 not upgraded. Need to get 51.6 MB of archives. After unpacking 218 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get: 2 http://deb.debian.org/debian buster/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get: 3 http://deb.debian.org/debian buster/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get: 4 http://deb.debian.org/debian buster/main amd64 groff-base amd64 1.22.4-3+deb10u1 [916 kB] Get: 5 http://deb.debian.org/debian buster/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get: 6 http://deb.debian.org/debian buster/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get: 7 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get: 8 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get: 9 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get: 10 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get: 11 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1d-0+deb10u7 [1539 kB] Get: 12 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u1 [106 kB] Get: 14 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get: 16 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get: 17 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get: 18 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get: 19 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get: 20 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get: 21 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get: 22 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get: 23 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get: 24 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get: 25 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get: 26 http://deb.debian.org/debian buster/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get: 27 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get: 28 http://deb.debian.org/debian buster/main amd64 m4 amd64 1.4.18-2 [203 kB] Get: 29 http://deb.debian.org/debian buster/main amd64 autoconf all 2.69-11 [341 kB] Get: 30 http://deb.debian.org/debian buster/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get: 31 http://deb.debian.org/debian buster/main amd64 automake all 1:1.16.1-4 [771 kB] Get: 32 http://deb.debian.org/debian buster/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get: 33 http://deb.debian.org/debian buster/main amd64 libtool all 2.4.6-9 [547 kB] Get: 34 http://deb.debian.org/debian buster/main amd64 dh-autoreconf all 19 [16.9 kB] Get: 35 http://deb.debian.org/debian buster/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 36 http://deb.debian.org/debian buster/main amd64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 37 http://deb.debian.org/debian buster/main amd64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 38 http://deb.debian.org/debian buster/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get: 39 http://deb.debian.org/debian buster/main amd64 dwz amd64 0.12-3 [78.0 kB] Get: 40 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get: 41 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u1 [8300 kB] Get: 42 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u2 [689 kB] Get: 43 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get: 44 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get: 45 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get: 46 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 47 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] Get: 48 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] Get: 49 http://deb.debian.org/debian buster/main amd64 hdf5-helpers amd64 1.10.4+repack-10 [35.2 kB] Get: 50 http://deb.debian.org/debian buster/main amd64 icu-devtools amd64 63.1-6+deb10u1 [189 kB] Get: 51 http://deb.debian.org/debian buster/main amd64 libaec0 amd64 1.0.2-1 [20.1 kB] Get: 52 http://deb.debian.org/debian buster/main amd64 libsz2 amd64 1.0.2-1 [6676 B] Get: 53 http://deb.debian.org/debian buster/main amd64 libaec-dev amd64 1.0.2-1 [18.4 kB] Get: 54 http://deb.debian.org/debian buster/main amd64 libbz2-dev amd64 1.0.6-9.2~deb10u1 [30.2 kB] Get: 55 http://deb.debian.org/debian buster/main amd64 libsepol1-dev amd64 2.8-1 [338 kB] Get: 56 http://deb.debian.org/debian buster/main amd64 libpcre16-3 amd64 2:8.39-12 [259 kB] Get: 57 http://deb.debian.org/debian buster/main amd64 libpcre32-3 amd64 2:8.39-12 [250 kB] Get: 58 http://deb.debian.org/debian buster/main amd64 libpcrecpp0v5 amd64 2:8.39-12 [152 kB] Get: 59 http://deb.debian.org/debian buster/main amd64 libpcre3-dev amd64 2:8.39-12 [650 kB] Get: 60 http://deb.debian.org/debian buster/main amd64 libselinux1-dev amd64 2.8-1+b1 [169 kB] Get: 61 http://deb.debian.org/debian buster/main amd64 libfuse-dev amd64 2.9.9-1+deb10u1 [152 kB] Get: 62 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get: 63 http://deb.debian.org/debian buster/main amd64 libhdf5-103 amd64 1.10.4+repack-10 [1325 kB] Get: 64 http://deb.debian.org/debian buster/main amd64 libhdf5-cpp-103 amd64 1.10.4+repack-10 [146 kB] Get: 65 http://deb.debian.org/debian buster/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-1 [214 kB] Get: 66 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+deb10u1 [133 kB] Get: 67 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo-dev amd64 1:1.5.2-2+deb10u1 [208 kB] Get: 68 http://deb.debian.org/debian buster/main amd64 libjpeg-dev all 1:1.5.2-2+deb10u1 [57.7 kB] Get: 69 http://deb.debian.org/debian buster/main amd64 libhdf5-dev amd64 1.10.4+repack-10 [2598 kB] Get: 70 http://deb.debian.org/debian buster/main amd64 libicu-dev amd64 63.1-6+deb10u1 [9186 kB] Get: 71 http://deb.debian.org/debian buster/main amd64 libmbedcrypto3 amd64 2.16.0-1 [209 kB] Get: 72 http://deb.debian.org/debian buster/main amd64 libmbedx509-0 amd64 2.16.0-1 [91.4 kB] Get: 73 http://deb.debian.org/debian buster/main amd64 libmbedtls12 amd64 2.16.0-1 [130 kB] Get: 74 http://deb.debian.org/debian buster/main amd64 libmbedtls-dev amd64 2.16.0-1 [488 kB] Get: 75 http://deb.debian.org/debian buster/main amd64 libkdf5-2 amd64 2.9.3+dfsg-2 [17.0 kB] Get: 76 http://deb.debian.org/debian buster/main amd64 libkdf5-dev amd64 2.9.3+dfsg-2 [16.5 kB] Get: 77 http://deb.debian.org/debian buster/main amd64 libmagic-dev amd64 1:5.35-4+deb10u2 [130 kB] Get: 78 http://deb.debian.org/debian buster/main amd64 libncbi-vdb2 amd64 2.9.3+dfsg-2 [1132 kB] Get: 79 http://deb.debian.org/debian buster/main amd64 libncbi-wvdb2 amd64 2.9.3+dfsg-2 [1028 kB] Get: 80 http://deb.debian.org/debian buster/main amd64 libncbi-wvdb-dev amd64 2.9.3+dfsg-2 [1157 kB] Get: 81 http://deb.debian.org/debian buster/main amd64 libncbi-vdb-dev amd64 2.9.3+dfsg-2 [1578 kB] Get: 82 http://deb.debian.org/debian buster/main amd64 libngs-sdk2 amd64 2.9.3-1 [62.7 kB] Get: 83 http://deb.debian.org/debian buster/main amd64 libngs-sdk-dev amd64 2.9.3-1 [111 kB] Get: 84 http://deb.debian.org/debian buster/main amd64 libvdb-sqlite2 amd64 2.9.3+dfsg-2 [1346 kB] Get: 85 http://deb.debian.org/debian buster/main amd64 libvdb-sqlite-dev amd64 2.9.3+dfsg-2 [1507 kB] Get: 86 http://deb.debian.org/debian buster/main amd64 libxml2-dev amd64 2.9.4+dfsg1-7+deb10u2 [784 kB] Fetched 51.6 MB in 1s (52.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19195 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../02-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3+deb10u1_amd64.deb ... Unpacking groff-base (1.22.4-3+deb10u1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../04-libpipeline1_1.5.1-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_amd64.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package libpython2.7-minimal:amd64. Preparing to unpack .../06-libpython2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../07-python2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking python2.7-minimal (2.7.16-2+deb10u1) ... Selecting previously unselected package python2-minimal. Preparing to unpack .../08-python2-minimal_2.7.16-1_amd64.deb ... Unpacking python2-minimal (2.7.16-1) ... Selecting previously unselected package python-minimal. Preparing to unpack .../09-python-minimal_2.7.16-1_amd64.deb ... Unpacking python-minimal (2.7.16-1) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../10-libssl1.1_1.1.1d-0+deb10u7_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1d-0+deb10u7) ... Selecting previously unselected package mime-support. Preparing to unpack .../11-mime-support_3.62_all.deb ... Unpacking mime-support (3.62) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../12-libexpat1_2.2.6-2+deb10u1_amd64.deb ... Unpacking libexpat1:amd64 (2.2.6-2+deb10u1) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package libreadline7:amd64. Preparing to unpack .../14-libreadline7_7.0-5_amd64.deb ... Unpacking libreadline7:amd64 (7.0-5) ... Selecting previously unselected package libpython2.7-stdlib:amd64. Preparing to unpack .../15-libpython2.7-stdlib_2.7.16-2+deb10u1_amd64.deb ... Unpacking libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7. Preparing to unpack .../16-python2.7_2.7.16-2+deb10u1_amd64.deb ... Unpacking python2.7 (2.7.16-2+deb10u1) ... Selecting previously unselected package libpython2-stdlib:amd64. Preparing to unpack .../17-libpython2-stdlib_2.7.16-1_amd64.deb ... Unpacking libpython2-stdlib:amd64 (2.7.16-1) ... Selecting previously unselected package libpython-stdlib:amd64. Preparing to unpack .../18-libpython-stdlib_2.7.16-1_amd64.deb ... Unpacking libpython-stdlib:amd64 (2.7.16-1) ... Setting up libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Setting up python2.7-minimal (2.7.16-2+deb10u1) ... Setting up python2-minimal (2.7.16-1) ... Selecting previously unselected package python2. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20658 files and directories currently installed.) Preparing to unpack .../python2_2.7.16-1_amd64.deb ... Unpacking python2 (2.7.16-1) ... Setting up python-minimal (2.7.16-1) ... Selecting previously unselected package python. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20691 files and directories currently installed.) Preparing to unpack .../00-python_2.7.16-1_amd64.deb ... Unpacking python (2.7.16-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../03-libmagic1_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.35-4+deb10u2) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking file (1:5.35-4+deb10u2) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.19.8.1-9_amd64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../06-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../07-m4_1.4.18-2_amd64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../08-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../09-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../10-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../11-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package libtool. Preparing to unpack .../12-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../13-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../14-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../15-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../16-dh-strip-nondeterminism_1.1.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../17-libelf1_0.176-1.1_amd64.deb ... Unpacking libelf1:amd64 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../18-dwz_0.12-3_amd64.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../19-libglib2.0-0_2.58.3-2+deb10u3_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... Selecting previously unselected package libicu63:amd64. Preparing to unpack .../20-libicu63_63.1-6+deb10u1_amd64.deb ... Unpacking libicu63:amd64 (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../21-libxml2_2.9.4+dfsg1-7+deb10u2_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-7+deb10u2) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../22-libcroco3_0.6.12-3_amd64.deb ... Unpacking libcroco3:amd64 (0.6.12-3) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../23-libncurses6_6.1+20181013-2+deb10u2_amd64.deb ... Unpacking libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package gettext. Preparing to unpack .../24-gettext_0.19.8.1-9_amd64.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../25-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../26-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../27-debhelper_12.1.1_all.deb ... Unpacking debhelper (12.1.1) ... Selecting previously unselected package hdf5-helpers. Preparing to unpack .../28-hdf5-helpers_1.10.4+repack-10_amd64.deb ... Unpacking hdf5-helpers (1.10.4+repack-10) ... Selecting previously unselected package icu-devtools. Preparing to unpack .../29-icu-devtools_63.1-6+deb10u1_amd64.deb ... Unpacking icu-devtools (63.1-6+deb10u1) ... Selecting previously unselected package libaec0:amd64. Preparing to unpack .../30-libaec0_1.0.2-1_amd64.deb ... Unpacking libaec0:amd64 (1.0.2-1) ... Selecting previously unselected package libsz2:amd64. Preparing to unpack .../31-libsz2_1.0.2-1_amd64.deb ... Unpacking libsz2:amd64 (1.0.2-1) ... Selecting previously unselected package libaec-dev:amd64. Preparing to unpack .../32-libaec-dev_1.0.2-1_amd64.deb ... Unpacking libaec-dev:amd64 (1.0.2-1) ... Selecting previously unselected package libbz2-dev:amd64. Preparing to unpack .../33-libbz2-dev_1.0.6-9.2~deb10u1_amd64.deb ... Unpacking libbz2-dev:amd64 (1.0.6-9.2~deb10u1) ... Selecting previously unselected package libsepol1-dev:amd64. Preparing to unpack .../34-libsepol1-dev_2.8-1_amd64.deb ... Unpacking libsepol1-dev:amd64 (2.8-1) ... Selecting previously unselected package libpcre16-3:amd64. Preparing to unpack .../35-libpcre16-3_2%3a8.39-12_amd64.deb ... Unpacking libpcre16-3:amd64 (2:8.39-12) ... Selecting previously unselected package libpcre32-3:amd64. Preparing to unpack .../36-libpcre32-3_2%3a8.39-12_amd64.deb ... Unpacking libpcre32-3:amd64 (2:8.39-12) ... Selecting previously unselected package libpcrecpp0v5:amd64. Preparing to unpack .../37-libpcrecpp0v5_2%3a8.39-12_amd64.deb ... Unpacking libpcrecpp0v5:amd64 (2:8.39-12) ... Selecting previously unselected package libpcre3-dev:amd64. Preparing to unpack .../38-libpcre3-dev_2%3a8.39-12_amd64.deb ... Unpacking libpcre3-dev:amd64 (2:8.39-12) ... Selecting previously unselected package libselinux1-dev:amd64. Preparing to unpack .../39-libselinux1-dev_2.8-1+b1_amd64.deb ... Unpacking libselinux1-dev:amd64 (2.8-1+b1) ... Selecting previously unselected package libfuse-dev. Preparing to unpack .../40-libfuse-dev_2.9.9-1+deb10u1_amd64.deb ... Unpacking libfuse-dev (2.9.9-1+deb10u1) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../41-libgfortran5_8.3.0-6_amd64.deb ... Unpacking libgfortran5:amd64 (8.3.0-6) ... Selecting previously unselected package libhdf5-103:amd64. Preparing to unpack .../42-libhdf5-103_1.10.4+repack-10_amd64.deb ... Unpacking libhdf5-103:amd64 (1.10.4+repack-10) ... Selecting previously unselected package libhdf5-cpp-103:amd64. Preparing to unpack .../43-libhdf5-cpp-103_1.10.4+repack-10_amd64.deb ... Unpacking libhdf5-cpp-103:amd64 (1.10.4+repack-10) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../44-zlib1g-dev_1%3a1.2.11.dfsg-1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-1) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../45-libjpeg62-turbo_1%3a1.5.2-2+deb10u1_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Selecting previously unselected package libjpeg62-turbo-dev:amd64. Preparing to unpack .../46-libjpeg62-turbo-dev_1%3a1.5.2-2+deb10u1_amd64.deb ... Unpacking libjpeg62-turbo-dev:amd64 (1:1.5.2-2+deb10u1) ... Selecting previously unselected package libjpeg-dev. Preparing to unpack .../47-libjpeg-dev_1%3a1.5.2-2+deb10u1_all.deb ... Unpacking libjpeg-dev (1:1.5.2-2+deb10u1) ... Selecting previously unselected package libhdf5-dev. Preparing to unpack .../48-libhdf5-dev_1.10.4+repack-10_amd64.deb ... Unpacking libhdf5-dev (1.10.4+repack-10) ... Selecting previously unselected package libicu-dev:amd64. Preparing to unpack .../49-libicu-dev_63.1-6+deb10u1_amd64.deb ... Unpacking libicu-dev:amd64 (63.1-6+deb10u1) ... Selecting previously unselected package libmbedcrypto3:amd64. Preparing to unpack .../50-libmbedcrypto3_2.16.0-1_amd64.deb ... Unpacking libmbedcrypto3:amd64 (2.16.0-1) ... Selecting previously unselected package libmbedx509-0:amd64. Preparing to unpack .../51-libmbedx509-0_2.16.0-1_amd64.deb ... Unpacking libmbedx509-0:amd64 (2.16.0-1) ... Selecting previously unselected package libmbedtls12:amd64. Preparing to unpack .../52-libmbedtls12_2.16.0-1_amd64.deb ... Unpacking libmbedtls12:amd64 (2.16.0-1) ... Selecting previously unselected package libmbedtls-dev:amd64. Preparing to unpack .../53-libmbedtls-dev_2.16.0-1_amd64.deb ... Unpacking libmbedtls-dev:amd64 (2.16.0-1) ... Selecting previously unselected package libkdf5-2. Preparing to unpack .../54-libkdf5-2_2.9.3+dfsg-2_amd64.deb ... Unpacking libkdf5-2 (2.9.3+dfsg-2) ... Selecting previously unselected package libkdf5-dev. Preparing to unpack .../55-libkdf5-dev_2.9.3+dfsg-2_amd64.deb ... Unpacking libkdf5-dev (2.9.3+dfsg-2) ... Selecting previously unselected package libmagic-dev:amd64. Preparing to unpack .../56-libmagic-dev_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic-dev:amd64 (1:5.35-4+deb10u2) ... Selecting previously unselected package libncbi-vdb2. Preparing to unpack .../57-libncbi-vdb2_2.9.3+dfsg-2_amd64.deb ... Unpacking libncbi-vdb2 (2.9.3+dfsg-2) ... Selecting previously unselected package libncbi-wvdb2. Preparing to unpack .../58-libncbi-wvdb2_2.9.3+dfsg-2_amd64.deb ... Unpacking libncbi-wvdb2 (2.9.3+dfsg-2) ... Selecting previously unselected package libncbi-wvdb-dev. Preparing to unpack .../59-libncbi-wvdb-dev_2.9.3+dfsg-2_amd64.deb ... Unpacking libncbi-wvdb-dev (2.9.3+dfsg-2) ... Selecting previously unselected package libncbi-vdb-dev. Preparing to unpack .../60-libncbi-vdb-dev_2.9.3+dfsg-2_amd64.deb ... Unpacking libncbi-vdb-dev (2.9.3+dfsg-2) ... Selecting previously unselected package libngs-sdk2. Preparing to unpack .../61-libngs-sdk2_2.9.3-1_amd64.deb ... Unpacking libngs-sdk2 (2.9.3-1) ... Selecting previously unselected package libngs-sdk-dev. Preparing to unpack .../62-libngs-sdk-dev_2.9.3-1_amd64.deb ... Unpacking libngs-sdk-dev (2.9.3-1) ... Selecting previously unselected package libvdb-sqlite2. Preparing to unpack .../63-libvdb-sqlite2_2.9.3+dfsg-2_amd64.deb ... Unpacking libvdb-sqlite2 (2.9.3+dfsg-2) ... Selecting previously unselected package libvdb-sqlite-dev. Preparing to unpack .../64-libvdb-sqlite-dev_2.9.3+dfsg-2_amd64.deb ... Unpacking libvdb-sqlite-dev (2.9.3+dfsg-2) ... Selecting previously unselected package libxml2-dev:amd64. Preparing to unpack .../65-libxml2-dev_2.9.4+dfsg1-7+deb10u2_amd64.deb ... Unpacking libxml2-dev:amd64 (2.9.4+dfsg1-7+deb10u2) ... Setting up libexpat1:amd64 (2.2.6-2+deb10u1) ... Setting up libpcrecpp0v5:amd64 (2:8.39-12) ... Setting up libpipeline1:amd64 (1.5.1-2) ... Setting up mime-support (3.62) ... Setting up libpcre16-3:amd64 (2:8.39-12) ... Setting up hdf5-helpers (1.10.4+repack-10) ... Setting up libmagic-mgc (1:5.35-4+deb10u2) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... No schema files found: doing nothing. Setting up libssl1.1:amd64 (1.1.1d-0+deb10u7) ... Setting up libmagic1:amd64 (1:5.35-4+deb10u2) ... Setting up libsepol1-dev:amd64 (2.8-1) ... Setting up libngs-sdk2 (2.9.3-1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u2) ... Setting up libmagic-dev:amd64 (1:5.35-4+deb10u2) ... Setting up libaec0:amd64 (1.0.2-1) ... Setting up libicu63:amd64 (63.1-6+deb10u1) ... Setting up autotools-dev (20180224.1) ... Setting up libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Setting up libjpeg62-turbo-dev:amd64 (1:1.5.2-2+deb10u1) ... Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libpcre32-3:amd64 (2:8.39-12) ... Setting up autopoint (0.19.8.1-9) ... Setting up icu-devtools (63.1-6+deb10u1) ... Setting up libngs-sdk-dev (2.9.3-1) ... Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-1) ... Setting up sensible-utils (0.0.12) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libmbedcrypto3:amd64 (2.16.0-1) ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up libicu-dev:amd64 (63.1-6+deb10u1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u2) ... Setting up libsz2:amd64 (1.0.2-1) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libbz2-dev:amd64 (1.0.6-9.2~deb10u1) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libtool (2.4.6-9) ... Setting up libvdb-sqlite2 (2.9.3+dfsg-2) ... Setting up libmbedx509-0:amd64 (2.16.0-1) ... Setting up libpcre3-dev:amd64 (2:8.39-12) ... Setting up libmbedtls12:amd64 (2.16.0-1) ... Setting up libaec-dev:amd64 (1.0.2-1) ... Setting up libjpeg-dev (1:1.5.2-2+deb10u1) ... Setting up m4 (1.4.18-2) ... Setting up libmbedtls-dev:amd64 (2.16.0-1) ... Setting up libncbi-vdb2 (2.9.3+dfsg-2) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Setting up libxml2-dev:amd64 (2.9.4+dfsg1-7+deb10u2) ... Setting up libvdb-sqlite-dev (2.9.3+dfsg-2) ... Setting up libncbi-wvdb2 (2.9.3+dfsg-2) ... Setting up libhdf5-103:amd64 (1.10.4+repack-10) ... 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:amd64 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3+deb10u1) ... Setting up libncbi-wvdb-dev (2.9.3+dfsg-2) ... 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 gettext (0.19.8.1-9) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up libselinux1-dev:amd64 (2.8-1+b1) ... Setting up libhdf5-cpp-103:amd64 (1.10.4+repack-10) ... Setting up libfuse-dev (2.9.9-1+deb10u1) ... Setting up libkdf5-2 (2.9.3+dfsg-2) ... 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:amd64 (2.7.16-1) ... Setting up libhdf5-dev (1.10.4+repack-10) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python (2.7.16-1) ... Setting up libkdf5-dev (2.9.3+dfsg-2) ... Setting up po-debconf (1.0.21) ... Setting up libncbi-vdb-dev (2.9.3+dfsg-2) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... 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 hostname: Name or service not known I: Running cd /build/sra-sdk-2.9.3+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../sra-sdk_2.9.3+dfsg-1_source.changes dpkg-buildpackage: info: source package sra-sdk dpkg-buildpackage: info: source version 2.9.3+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --no-parallel dh_autoreconf_clean -O--no-parallel debian/rules override_dh_clean make[1]: Entering directory '/build/sra-sdk-2.9.3+dfsg' dh_clean rm -f build/OUTDIR.linux make[1]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' debian/rules build make: 'build' is up to date. fakeroot debian/rules binary dh binary --no-parallel debian/rules override_dh_update_autotools_config make[1]: Entering directory '/build/sra-sdk-2.9.3+dfsg' echo "do nothing" do nothing make[1]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' dh_autoreconf -O--no-parallel debian/rules override_dh_auto_configure make[1]: Entering directory '/build/sra-sdk-2.9.3+dfsg' # output dir will be checked so create it before mkdir -p debian/tmp/usr/lib ln -s /usr/lib/x86_64-linux-gnu debian/tmp/usr/lib # # # --with-debug sets some options that require header files like compiler.h which # is internal to ncbi-vcb and not installed into the package - so this option # should not be used. ./configure --build=x86_64-linux-gnu --prefix=/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr --build-prefix=/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr --with-ngs-sdk-prefix=/usr Configuring SRA-TOOLS package checking system type... Linux checking OS distributor... checking machine architecture... x86_64 checking for supported architecture... x86_64 (64 bits) is supported checking for supported OS... Linux (linux) is supported checking for supported tool chain... gcc tool chain is supported checking for g++... yes checking whether gcc accepts -Wno-array-bounds... yes checking whether g++ accepts -static-libstdc++... yes checking for QMake... no checking for fuse library... running echo -e '#include \n int main() { fuse_get_context(); }\n' | gcc -xc -D_FILE_OFFSET_BITS=64 -I/usr/include - -lfuse yes HAVE_FUSE = 1 FUSE_INCDIR = /usr/include checking for hdf5 library... running echo -e '#include \n int main() { H5close (); }\n' | gcc -xc -I/usr/include - -lhdf5_serial -Wl,-Bdynamic -ldl -lm -lz yes HAVE_HDF5 = 1 HDF5_INCDIR = /usr/include checking for magic library... running echo -e '#include \n int main() { magic_open (0); }\n' | gcc -xc -I/usr/include - -lmagic yes HAVE_MAGIC = 1 MAGIC_INCDIR = /usr/include checking for xml2 library... running echo -e '#include \nint main() { xmlInitParser ( ); }\n' | gcc -xc -I/usr/include/libxml2 - -lxml2 yes HAVE_XML2 = 1 XML2_INCDIR = /usr/include/libxml2 checking for ngs-sdk package... includes... /usr libraries... checking /usr/lib/x86_64-linux-gnu/libngs-c++.a /usr/lib/x86_64-linux-gnu includes: /usr/include libraries: /usr/lib/x86_64-linux-gnu checking for ncbi-vdb package source files and build results... includes... /usr/include/ncbi-vdb src... includes... /usr libraries... checking /usr/lib/x86_64-linux-gnu/libncbi-vdb.so /usr/lib/x86_64-linux-gnu libraries... checking /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-vdb.so checking /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libkapp.a /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu includes: /usr/include/ncbi-vdb libraries: /usr/lib/x86_64-linux-gnu ilibraries: /usr/lib/x86_64-linux-gnu configure: creating 'build/ld.linux.exe_cmd.sh' configure: creating 'build/Makefile.config.linux.x86_64' configure: creating 'Makefile.config' configure: creating 'reconfigure' build type: release build prefix: /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools build output path: /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel includedir: /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/include bindir: /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/bin libdir: /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/lib CC = gcc -c CPP = g++ configured with: "'--build=x86_64-linux-gnu' '--prefix=/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr' '--build-prefix=/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr' '--with-ngs-sdk-prefix=/usr'" make[1]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/sra-sdk-2.9.3+dfsg' export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:/build/sra-sdk-2.9.3+dfsg/debian/tmp/lib"; export OUTDIR=/build/sra-sdk-2.9.3+dfsg/debian/tmp ; make DEB_CFLAGS="-g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security" DEB_LDFLAGS="-Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/build/sra-sdk-2.9.3+dfsg' make[3]: Entering directory '/build/sra-sdk-2.9.3+dfsg/shared' '/usr/lib/ncbi-vdb/kfg/certs.kfg' -> '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/ncbi/certs.kfg' '/usr/lib/ncbi-vdb/kfg/default.kfg' -> '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/ncbi/default.kfg' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/shared' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/shared/linux -I/build/sra-sdk-2.9.3+dfsg/shared/unix -I/build/sra-sdk-2.9.3+dfsg/shared -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o toolkit.vers.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/shared/toolkit.vers.c -D__mod_name__=shared -D__file_name__=toolkit.vers -D__file_ext__=c ar -rc /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib/libtk-version.a toolkit.vers.pic.o make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/shared' make[3]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/shared' make[3]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/util' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/util' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o rcexplain.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/rcexplain.c -D__mod_name__=tools/util -D__file_name__=rcexplain -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/rcexplain.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now rcexplain.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s rcexplain.2.9.3 rcexplain.2 ln -s rcexplain.2 rcexplain gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o kdbmeta.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/kdbmeta.c -D__mod_name__=tools/util -D__file_name__=kdbmeta -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/kdbmeta.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now kdbmeta.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s kdbmeta.2.9.3 kdbmeta.2 ln -s kdbmeta.2 kdbmeta gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o md5cp.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/md5cp.c -D__mod_name__=tools/util -D__file_name__=md5cp -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/md5cp.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now md5cp.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s md5cp.2.9.3 md5cp.2 ln -s md5cp.2 md5cp gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-lock.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/vdb-lock.c -D__mod_name__=tools/util -D__file_name__=vdb-lock -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-lock.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now vdb-lock.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-lock.2.9.3 vdb-lock.2 ln -s vdb-lock.2 vdb-lock gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-unlock.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/vdb-unlock.c -D__mod_name__=tools/util -D__file_name__=vdb-unlock -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-unlock.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now vdb-unlock.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-unlock.2.9.3 vdb-unlock.2 ln -s vdb-unlock.2 vdb-unlock gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o PrintOS.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/unix/PrintOS.c -D__mod_name__=tools/util -D__file_name__=PrintOS -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o test-sra.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/test-sra.c -D__mod_name__=tools/util -D__file_name__=test-sra -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/test-sra.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now PrintOS.o test-sra.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s test-sra.2.9.3 test-sra.2 ln -s test-sra.2 test-sra gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-passwd.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/vdb-passwd.c -D__mod_name__=tools/util -D__file_name__=vdb-passwd -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o syspass.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/unix/syspass.c -D__mod_name__=tools/util -D__file_name__=syspass -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-passwd.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now vdb-passwd.o syspass.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-passwd.2.9.3 vdb-passwd.2 ln -s vdb-passwd.2 vdb-passwd make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/util' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/util' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/align-cache' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-cache' g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/align-cache/linux -I/build/sra-sdk-2.9.3+dfsg/tools/align-cache/unix -I/build/sra-sdk-2.9.3+dfsg/tools/align-cache -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o align-cache.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/align-cache/align-cache.cpp -D__mod_name__=tools/align-cache -D__file_name__=align-cache -D__file_ext__=cpp g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/align-cache/linux -I/build/sra-sdk-2.9.3+dfsg/tools/align-cache/unix -I/build/sra-sdk-2.9.3+dfsg/tools/align-cache -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o helper.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/align-cache/helper.cpp -D__mod_name__=tools/align-cache -D__file_name__=helper -D__file_ext__=cpp ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ g++ -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/align-cache.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now align-cache.o helper.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -lload -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s align-cache.2.9.3 align-cache.2 ln -s align-cache.2 align-cache make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-cache' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/align-cache' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/kar' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kar' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/kar/linux -I/build/sra-sdk-2.9.3+dfsg/tools/kar/unix -I/build/sra-sdk-2.9.3+dfsg/tools/kar -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o kar-args.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/kar/kar-args.c -D__mod_name__=tools/kar -D__file_name__=kar-args -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/kar/linux -I/build/sra-sdk-2.9.3+dfsg/tools/kar/unix -I/build/sra-sdk-2.9.3+dfsg/tools/kar -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o kar.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/kar/kar.c -D__mod_name__=tools/kar -D__file_name__=kar -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/kar/kar.c: In function 'kar_persist': /build/sra-sdk-2.9.3+dfsg/tools/kar/kar.c:1024:15: warning: 'total_written' may be used uninitialized in this function [-Wmaybe-uninitialized] *num_writ = total_written; ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/kar/kar.c:980:28: note: 'total_written' was declared here size_t total_expected, total_written; ^~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/kar/kar.c:956:15: warning: 'total_written' may be used uninitialized in this function [-Wmaybe-uninitialized] *num_writ = total_written; ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/kar/kar.c:911:28: note: 'total_written' was declared here size_t total_expected, total_written; ^~~~~~~~~~~~~ ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/kar.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now kar-args.o kar.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s kar.2.9.3 kar.2 ln -s kar.2 kar make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kar' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/kar' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/kqsh' perl kqsh-thunk.pl -mkdb -I/usr/include/ncbi-vdb/ -ikdb/manager.h -ikdb/database.h -ikdb/table.h -ikdb/column.h -ikdb/index.h -ikdb/meta.h -ikdb/namelist.h \ :KDBManager=mgr :KDatabase=db :KTable=tbl :KColumn=col :KColumnBlob=blob :KIndex=idx :KMetadata=meta :KMDataNode=node -h kqsh-kdb.h -c kqsh-kdb.c || rm kqsh-kdb.c perl kqsh-thunk.pl -mvdb -I/usr/include/ncbi-vdb/ -ivdb/manager.h -ivdb/database.h -ivdb/schema.h -ivdb/table.h -ivdb/cursor.h \ :VDBManager=mgr VSchemaRuntimeTable=srtt VSchema=schema VTypedecl=td VTypedesc=tdesc :VDatabase=db :VTable=tbl :VCursor=curs -h kqsh-vdb.h -c kqsh-vdb.c || rm kqsh-vdb.c perl kqsh-thunk.pl -msra -I/usr/include/ncbi-vdb/ -isra/sradb.h -isra/wsradb.h -isra/sraschema.h \ :SRAMgr=mgr SRANamelist=nmlist :SRATable=tbl SRAColumn=col VDBManager=vmgr -h kqsh-sra.h -c kqsh-sra.c || rm kqsh-sra.c make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kqsh' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/std-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kqsh' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/kqsh' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-dump' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-context.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-context.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-context -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-coldefs.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-coldefs.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-coldefs -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-coldefs.c:899:13: warning: 'vdcd_is_static_column2' defined but not used [-Wunused-function] static bool vdcd_is_static_column2( const VTable *my_table, col_def * col ) ^~~~~~~~~~~~~~~~~~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-tools.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-tools.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-tools -D__file_ext__=c In file included from /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-tools.c:41: /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-tools.c: In function 'vdt_dump_float_element': /usr/include/ncbi-vdb/cc/gcc/x86_64/bitstr.h:35:20: warning: 'value' may be used uninitialized in this function [-Wmaybe-uninitialized] #define BSWAP( x ) bswap_32 ( x ) ^~~~~~~~ /usr/include/ncbi-vdb/cc/gcc/x86_64/bitstr.h:35:20: warning: 'value' may be used uninitialized in this function [-Wmaybe-uninitialized] /usr/include/ncbi-vdb/cc/gcc/x86_64/bitstr.h:35:20: warning: '*((void *)&value+4)' may be used uninitialized in this function [-Wmaybe-uninitialized] gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-str.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-str.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-str -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-helper.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-helper.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-helper -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-filter.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-filter.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-filter -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-formats.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-formats.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-formats -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-redir.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-redir.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-redir -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-fastq.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-fastq.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-fastq -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-bin.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-bin.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-bin -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-interact.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-interact.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-interact -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-repo.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-repo.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-repo -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump-print.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-print.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump-print -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-print.c:1305:13: warning: 'vdp_print_show_src_and_ranges' defined but not used [-Wunused-function] static rc_t vdp_print_show_src_and_ranges( struct num_gen * ranges, uint32_t src_id ) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-print.c:46: /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-print.c: In function 'vdp_print_cell_cmn.constprop': /usr/include/ncbi-vdb/cc/gcc/x86_64/bitstr.h:35:20: warning: 'value' may be used uninitialized in this function [-Wmaybe-uninitialized] #define BSWAP( x ) bswap_32 ( x ) ^~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-print.c: In function 'vdp_float': /usr/include/ncbi-vdb/cc/gcc/x86_64/bitstr.h:35:20: warning: 'value' may be used uninitialized in this function [-Wmaybe-uninitialized] /usr/include/ncbi-vdb/cc/gcc/x86_64/bitstr.h:35:20: warning: 'value' may be used uninitialized in this function [-Wmaybe-uninitialized] /usr/include/ncbi-vdb/cc/gcc/x86_64/bitstr.h:35:20: warning: '*((void *)&value+4)' may be used uninitialized in this function [-Wmaybe-uninitialized] /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump-print.c: In function 'vdp_print_cell_cmn': /usr/include/ncbi-vdb/cc/gcc/x86_64/bitstr.h:35:20: warning: 'value' may be used uninitialized in this function [-Wmaybe-uninitialized] gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb_info.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb_info.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb_info -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-dump.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-dump/vdb-dump.c -D__mod_name__=tools/vdb-dump -D__file_name__=vdb-dump -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-dump.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now vdb-dump-context.o vdb-dump-coldefs.o vdb-dump-tools.o vdb-dump-str.o vdb-dump-helper.o vdb-dump-filter.o vdb-dump-formats.o vdb-dump-redir.o vdb-dump-fastq.o vdb-dump-bin.o vdb-dump-interact.o vdb-dump-repo.o vdb-dump-print.o vdb_info.o vdb-dump.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-dump.2.9.3 vdb-dump.2 ln -s vdb-dump.2 vdb-dump make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-dump' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-dump' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-dump' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o factory.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/factory.c -D__mod_name__=tools/sra-dump -D__file_name__=factory -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fasta_dump.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/fasta_dump.c -D__mod_name__=tools/sra-dump -D__file_name__=fasta_dump -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o core.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/core.c -D__mod_name__=tools/sra-dump -D__file_name__=core -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/core.c: In function 'SRADumper_GetArg': /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/core.c:854:36: warning: comparison between pointer and zero character constant [-Wpointer-compare] if ( arg == NULL && *value == '\0' ) ^~ /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/core.c:854:29: note: did you mean to dereference the pointer? if ( arg == NULL && *value == '\0' ) ^ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/fastq.c -D__mod_name__=tools/sra-dump -D__file_name__=fastq -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/fastq-dump.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now factory.o fasta_dump.o core.o fastq.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s fastq-dump.2.9.3 fastq-dump.2 ln -s fastq-dump.2 fastq-dump gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sff.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/sff.c -D__mod_name__=tools/sra-dump -D__file_name__=sff -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sff-dump.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now factory.o fasta_dump.o core.o sff.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s sff-dump.2.9.3 sff-dump.2 ln -s sff-dump.2 sff-dump gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o illumina.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/illumina.c -D__mod_name__=tools/sra-dump -D__file_name__=illumina -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/illumina-dump.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now factory.o fasta_dump.o core.o illumina.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s illumina-dump.2.9.3 illumina-dump.2 ln -s illumina-dump.2 illumina-dump gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o abi.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-dump/abi.c -D__mod_name__=tools/sra-dump -D__file_name__=abi -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/abi-dump.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now factory.o fasta_dump.o core.o abi.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s abi-dump.2.9.3 abi-dump.2 ln -s abi-dump.2 abi-dump make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-dump' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-dump' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-pileup' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o dyn_string.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/dyn_string.c -D__mod_name__=tools/sra-pileup -D__file_name__=dyn_string -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cmdline_cmn.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/cmdline_cmn.c -D__mod_name__=tools/sra-pileup -D__file_name__=cmdline_cmn -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/cmdline_cmn.c: In function 'foreach_argument': /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/cmdline_cmn.c:514:20: warning: 'rc' may be used uninitialized in this function [-Wmaybe-uninitialized] if ( rc == 0 && path != NULL ) ^ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o out_redir.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/out_redir.c -D__mod_name__=tools/sra-pileup -D__file_name__=out_redir -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o perf_log.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/perf_log.c -D__mod_name__=tools/sra-pileup -D__file_name__=perf_log -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o reref.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/reref.c -D__mod_name__=tools/sra-pileup -D__file_name__=reref -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/reref.c: In function 'report_on_reference': /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/reref.c:205:14: warning: 'max_ev_at' may be used uninitialized in this function [-Wmaybe-uninitialized] rc = KOutMsg( "max. EV:\t%,u\tat row #%,i ( from pos: %,u ... %,u )\n", max_ev, max_ev_at, from, from + 4999 ); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/reref.c:159:46: note: 'max_ev_at' was declared here int64_t row_id, max_prim_at, max_sec_at, max_ev_at; ^~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/reref.c:199:40: warning: 'max_sec_at' may be used uninitialized in this function [-Wmaybe-uninitialized] uint64_t from = ( ( max_sec_at - start ) * 5000 ) + 1; ~~~~~~~~~~~~~^~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/reref.c:159:34: note: 'max_sec_at' was declared here int64_t row_id, max_prim_at, max_sec_at, max_ev_at; ^~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/reref.c:194:41: warning: 'max_prim_at' may be used uninitialized in this function [-Wmaybe-uninitialized] uint64_t from = ( ( max_prim_at - start ) * 5000 ) + 1; ~~~~~~~~~~~~~~^~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/reref.c:159:21: note: 'max_prim_at' was declared here int64_t row_id, max_prim_at, max_sec_at, max_ev_at; ^~~~~~~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cg_tools.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/cg_tools.c -D__mod_name__=tools/sra-pileup -D__file_name__=cg_tools -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/cg_tools.c: In function 'fmt_cigar_elem': /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/cg_tools.c:570:10: warning: unused variable 'rc' [-Wunused-variable] rc_t rc = string_printf ( dst, 11, &num_writ, "%d%c", cig_oplen, cig_op ); ^~ /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/cg_tools.c: In function 'cg_canonical_print_cigar': /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/cg_tools.c:1721:12: warning: 'rc' may be used uninitialized in this function [-Wmaybe-uninitialized] return rc; ^~ /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/cg_tools.c:1717:12: warning: 'total_cnt' may be used uninitialized in this function [-Wmaybe-uninitialized] if(total_cnt && op) KOutMsg( "%d%c", total_cnt,op ); ^~~~~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o report_deletes.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/report_deletes.c -D__mod_name__=tools/sra-pileup -D__file_name__=report_deletes -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ref_regions.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/ref_regions.c -D__mod_name__=tools/sra-pileup -D__file_name__=ref_regions -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o 4na_ascii.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/4na_ascii.c -D__mod_name__=tools/sra-pileup -D__file_name__=4na_ascii -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ref_walker_0.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/ref_walker_0.c -D__mod_name__=tools/sra-pileup -D__file_name__=ref_walker_0 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ref_walker.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/ref_walker.c -D__mod_name__=tools/sra-pileup -D__file_name__=ref_walker -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o walk_debug.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/walk_debug.c -D__mod_name__=tools/sra-pileup -D__file_name__=walk_debug -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pileup_counters.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/pileup_counters.c -D__mod_name__=tools/sra-pileup -D__file_name__=pileup_counters -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pileup_index.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/pileup_index.c -D__mod_name__=tools/sra-pileup -D__file_name__=pileup_index -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pileup_indels.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/pileup_indels.c -D__mod_name__=tools/sra-pileup -D__file_name__=pileup_indels -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pileup_varcount.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/pileup_varcount.c -D__mod_name__=tools/sra-pileup -D__file_name__=pileup_varcount -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pileup_stat.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/pileup_stat.c -D__mod_name__=tools/sra-pileup -D__file_name__=pileup_stat -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pileup_v2.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/pileup_v2.c -D__mod_name__=tools/sra-pileup -D__file_name__=pileup_v2 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sra-pileup.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sra-pileup.c -D__mod_name__=tools/sra-pileup -D__file_name__=sra-pileup -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sra-pileup.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now dyn_string.o cmdline_cmn.o out_redir.o perf_log.o reref.o cg_tools.o report_deletes.o ref_regions.o 4na_ascii.o ref_walker_0.o ref_walker.o walk_debug.o pileup_counters.o pileup_index.o pileup_indels.o pileup_varcount.o pileup_stat.o pileup_v2.o sra-pileup.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s sra-pileup.2.9.3 sra-pileup.2 ln -s sra-pileup.2 sra-pileup gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o inputfiles.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/inputfiles.c -D__mod_name__=tools/sra-pileup -D__file_name__=inputfiles -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o rna_splice_log.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/rna_splice_log.c -D__mod_name__=tools/sra-pileup -D__file_name__=rna_splice_log -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sam-dump-opts.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-dump-opts.c -D__mod_name__=tools/sra-pileup -D__file_name__=sam-dump-opts -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sam-hdr.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-hdr.c -D__mod_name__=tools/sra-pileup -D__file_name__=sam-hdr -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sam-hdr1.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-hdr1.c -D__mod_name__=tools/sra-pileup -D__file_name__=sam-hdr1 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o matecache.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/matecache.c -D__mod_name__=tools/sra-pileup -D__file_name__=matecache -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o read_fkt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/read_fkt.c -D__mod_name__=tools/sra-pileup -D__file_name__=read_fkt -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sam-aligned.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-aligned.c -D__mod_name__=tools/sra-pileup -D__file_name__=sam-aligned -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sam-unaligned.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-unaligned.c -D__mod_name__=tools/sra-pileup -D__file_name__=sam-unaligned -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o md_flag.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/md_flag.c -D__mod_name__=tools/sra-pileup -D__file_name__=md_flag -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sam-dump.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-dump.c -D__mod_name__=tools/sra-pileup -D__file_name__=sam-dump -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-dump.c: In function 'DumpCGSAM.part.18': /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-dump.c:2752:40: warning: 'last_cig_op' may be used uninitialized in this function [-Wmaybe-uninitialized] ciglen = last_ciglen + sprintf(dst+last_ciglen,"%d%c",last_cig_oplen,last_cig_op); \ ^~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-dump.c:2740:14: note: 'last_cig_op' was declared here char last_cig_op; ^~~~~~~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sam-dump3.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-dump3.c -D__mod_name__=tools/sra-pileup -D__file_name__=sam-dump3 -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-dump3.c: In function 'KMain': /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-dump3.c:477:10: warning: 'mode' may be used uninitialized in this function [-Wmaybe-uninitialized] rc = init_out_redir( &redir, mode, opts->outputfile, opts->output_buffer_size ); /* from out_redir.c */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-pileup/sam-dump3.c:468:25: note: 'mode' was declared here enum out_redir_mode mode; ^~~~ ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sam-dump.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now inputfiles.o perf_log.o rna_splice_log.o sam-dump-opts.o out_redir.o sam-hdr.o sam-hdr1.o matecache.o read_fkt.o sam-aligned.o sam-unaligned.o md_flag.o cg_tools.o sam-dump.o sam-dump3.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s sam-dump.2.9.3 sam-dump.2 ln -s sam-dump.2 sam-dump make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-pileup' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/bam-loader' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/bam-loader' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o bam-loader.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam-loader.c -D__mod_name__=tools/bam-loader -D__file_name__=bam-loader -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o bam.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c -D__mod_name__=tools/bam-loader -D__file_name__=bam -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c: In function 'ProcessHeaderText': /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:815:23: warning: 'value' may be used uninitialized in this function [-Wmaybe-uninitialized] while (value < i && isspace(hdata[value])) ^ /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:781:14: note: 'value' was declared here unsigned value; ^~~~~ /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:824:21: warning: 'tag' may be used uninitialized in this function [-Wmaybe-uninitialized] if (strcmp(&hdata[tag], "ID") == 0) ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:780:14: note: 'tag' was declared here unsigned tag; ^~~ /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:715:23: warning: 'value' may be used uninitialized in this function [-Wmaybe-uninitialized] while (value < i && isspace(hdata[value])) ^ /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:671:14: note: 'value' was declared here unsigned value; ^~~~~ /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:720:21: warning: 'tag' may be used uninitialized in this function [-Wmaybe-uninitialized] if (strcmp(&hdata[tag], "SN") == 0) ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:670:14: note: 'tag' was declared here unsigned tag; ^~~ /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c: In function 'BAM_FileMake': /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:1302:18: warning: 'refSeq' may be used uninitialized in this function [-Wmaybe-uninitialized] self->refSeq = refSeq; ~~~~~~~~~~~~~^~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/bam.c:1263:16: note: 'refSeq' was declared here BAMRefSeq *refSeq; ^~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o alignment-writer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/alignment-writer.c -D__mod_name__=tools/bam-loader -D__file_name__=alignment-writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o reference-writer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/reference-writer.c -D__mod_name__=tools/bam-loader -D__file_name__=reference-writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sequence-writer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/sequence-writer.c -D__mod_name__=tools/bam-loader -D__file_name__=sequence-writer -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/sequence-writer.c: In function 'SequenceWhack': /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/sequence-writer.c:490:14: warning: unused variable 'rc' [-Wunused-variable] rc_t rc = VDatabaseOpenTableUpdate(self->db, &tbl, "SEQUENCE"); ^~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o loader-imp.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/loader-imp.c -D__mod_name__=tools/bam-loader -D__file_name__=loader-imp -D__file_ext__=c g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o mem-bank.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/mem-bank.cpp -D__mod_name__=tools/bam-loader -D__file_name__=mem-bank -D__file_ext__=cpp g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o low-match-count.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/low-match-count.cpp -D__mod_name__=tools/bam-loader -D__file_name__=low-match-count -D__file_ext__=cpp ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ g++ -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/bam-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now bam-loader.o bam.o alignment-writer.o reference-writer.o sequence-writer.o loader-imp.o mem-bank.o low-match-count.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s bam-load.2.9.3 bam-load.2 ln -s bam-load.2 bam-load make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/bam-loader' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/bam-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fastq-loader' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o common-writer.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/common-writer.c -D__mod_name__=tools/fastq-loader -D__file_name__=common-writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sequence-writer.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/sequence-writer.c -D__mod_name__=tools/fastq-loader -D__file_name__=sequence-writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o common-reader.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/common-reader.c -D__mod_name__=tools/fastq-loader -D__file_name__=common-reader -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq-reader.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-reader.c -D__mod_name__=tools/fastq-loader -D__file_name__=fastq-reader -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq-grammar.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-grammar.c -D__mod_name__=tools/fastq-loader -D__file_name__=fastq-grammar -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq-lex.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c -D__mod_name__=tools/fastq-loader -D__file_name__=fastq-lex -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c: In function 'yylex': /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:1142:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if ( ! yyg->yy_state_buf ) ^~ /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:1144:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' if ( ! yyg->yy_state_buf ) ^~ At top level: /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:2449:13: warning: 'yy_fatal_error' defined but not used [-Wunused-function] static void yy_fatal_error (yyconst char* msg , yyscan_t yyscanner) ^~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:2435:16: warning: 'yy_top_state' defined but not used [-Wunused-function] static int yy_top_state (yyscan_t yyscanner) ^~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:1878:16: warning: 'input' defined but not used [-Wunused-function] static int input (yyscan_t yyscanner) ^~~~~ ar -rc /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib/libfastqloader.a common-writer.pic.o sequence-writer.pic.o common-reader.pic.o fastq-reader.pic.o fastq-grammar.pic.o fastq-lex.pic.o gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq-loader.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-loader.c -D__mod_name__=tools/fastq-loader -D__file_name__=fastq-loader -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-loader.c:67:19: warning: 'option_read' defined but not used [-Wunused-const-variable=] static char const option_read[] = "read"; ^~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-loader.c:58:19: warning: 'option_input' defined but not used [-Wunused-const-variable=] static char const option_input[] = "input"; ^~~~~~~~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o loader-imp.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/loader-imp.c -D__mod_name__=tools/fastq-loader -D__file_name__=loader-imp -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o common-writer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/common-writer.c -D__mod_name__=tools/fastq-loader -D__file_name__=common-writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sequence-writer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/sequence-writer.c -D__mod_name__=tools/fastq-loader -D__file_name__=sequence-writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o common-reader.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/common-reader.c -D__mod_name__=tools/fastq-loader -D__file_name__=common-reader -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq-reader.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-reader.c -D__mod_name__=tools/fastq-loader -D__file_name__=fastq-reader -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq-grammar.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-grammar.c -D__mod_name__=tools/fastq-loader -D__file_name__=fastq-grammar -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq-lex.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c -D__mod_name__=tools/fastq-loader -D__file_name__=fastq-lex -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c: In function 'yylex': /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:1142:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if ( ! yyg->yy_state_buf ) ^~ /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:1144:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' if ( ! yyg->yy_state_buf ) ^~ At top level: /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:2449:13: warning: 'yy_fatal_error' defined but not used [-Wunused-function] static void yy_fatal_error (yyconst char* msg , yyscan_t yyscanner) ^~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:2435:16: warning: 'yy_top_state' defined but not used [-Wunused-function] static int yy_top_state (yyscan_t yyscanner) ^~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fastq-loader/fastq-lex.c:1878:16: warning: 'input' defined but not used [-Wunused-function] static int input (yyscan_t yyscanner) ^~~~~ ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/latf-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now fastq-loader.o loader-imp.o common-writer.o sequence-writer.o common-reader.o fastq-reader.o fastq-grammar.o fastq-lex.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s latf-load.2.9.3 latf-load.2 ln -s latf-load.2 latf-load make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fastq-loader' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/srapath' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/srapath' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/linux -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/unix -I/build/sra-sdk-2.9.3+dfsg/tools/srapath -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o helper.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/srapath/helper.c -D__mod_name__=tools/srapath -D__file_name__=helper -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/linux -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/unix -I/build/sra-sdk-2.9.3+dfsg/tools/srapath -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o line_iter.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/srapath/line_iter.c -D__mod_name__=tools/srapath -D__file_name__=line_iter -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/linux -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/unix -I/build/sra-sdk-2.9.3+dfsg/tools/srapath -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o repository-mgr.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/srapath/repository-mgr.c -D__mod_name__=tools/srapath -D__file_name__=repository-mgr -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/linux -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/unix -I/build/sra-sdk-2.9.3+dfsg/tools/srapath -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o services.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/srapath/services.c -D__mod_name__=tools/srapath -D__file_name__=services -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/linux -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/unix -I/build/sra-sdk-2.9.3+dfsg/tools/srapath -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cgi_request.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/srapath/cgi_request.c -D__mod_name__=tools/srapath -D__file_name__=cgi_request -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/srapath/cgi_request.c: In function 'clear_cgi_request_params': /build/sra-sdk-2.9.3+dfsg/tools/srapath/cgi_request.c:178:12: warning: 'rc' may be used uninitialized in this function [-Wmaybe-uninitialized] return rc; ^~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/linux -I/build/sra-sdk-2.9.3+dfsg/tools/srapath/unix -I/build/sra-sdk-2.9.3+dfsg/tools/srapath -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o srapath.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/srapath/srapath.c -D__mod_name__=tools/srapath -D__file_name__=srapath -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/srapath.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now helper.o line_iter.o repository-mgr.o services.o cgi_request.o srapath.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s srapath.2.9.3 srapath.2 ln -s srapath.2 srapath make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/srapath' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/srapath' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-stat' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-stat' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o assembly-statistics.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-stat/assembly-statistics.c -D__mod_name__=tools/sra-stat -D__file_name__=assembly-statistics -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sra.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-stat/sra.c -D__mod_name__=tools/sra-stat -D__file_name__=sra -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sra-stat.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-stat/sra-stat.c -D__mod_name__=tools/sra-stat -D__file_name__=sra-stat -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sra-stat.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now assembly-statistics.o sra.o sra-stat.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -lload -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s sra-stat.2.9.3 sra-stat.2 ln -s sra-stat.2 sra-stat make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-stat' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-copy' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o context.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/context.c -D__mod_name__=tools/vdb-copy -D__file_name__=context -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o helper.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/helper.c -D__mod_name__=tools/vdb-copy -D__file_name__=helper -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o coldefs.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/coldefs.c -D__mod_name__=tools/vdb-copy -D__file_name__=coldefs -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o get_platform.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/get_platform.c -D__mod_name__=tools/vdb-copy -D__file_name__=get_platform -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o namelist_tools.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/namelist_tools.c -D__mod_name__=tools/vdb-copy -D__file_name__=namelist_tools -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o copy_meta.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/copy_meta.c -D__mod_name__=tools/vdb-copy -D__file_name__=copy_meta -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o type_matcher.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/type_matcher.c -D__mod_name__=tools/vdb-copy -D__file_name__=type_matcher -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o redactval.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/redactval.c -D__mod_name__=tools/vdb-copy -D__file_name__=redactval -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o config_values.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/config_values.c -D__mod_name__=tools/vdb-copy -D__file_name__=config_values -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-copy.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/vdb-copy.c -D__mod_name__=tools/vdb-copy -D__file_name__=vdb-copy -D__file_ext__=c cp /build/sra-sdk-2.9.3+dfsg/tools/vdb-copy/vdb-copy.kfg /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/ncbi/vdb-copy.kfg ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-copy.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now context.o helper.o coldefs.o get_platform.o namelist_tools.o copy_meta.o type_matcher.o redactval.o config_values.o vdb-copy.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-copy.2.9.3 vdb-copy.2 ln -s vdb-copy.2 vdb-copy make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-copy' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/rd-filter-redact' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact/linux -I/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact/unix -I/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o read-filter-redact.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact/read-filter-redact.c -D__mod_name__=tools/rd-filter-redact -D__file_name__=read-filter-redact -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/read-filter-redact.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now read-filter-redact.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s read-filter-redact.2.9.3 read-filter-redact.2 ln -s read-filter-redact.2 read-filter-redact make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/rd-filter-redact' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-config' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-config' g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o configure.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-config/configure.cpp -D__mod_name__=tools/vdb-config -D__file_name__=configure -D__file_ext__=cpp g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o util.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-config/util.cpp -D__mod_name__=tools/vdb-config -D__file_name__=util -D__file_ext__=cpp gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-config.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-config/vdb-config.c -D__mod_name__=tools/vdb-config -D__file_name__=vdb-config -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/vdb-config/vdb-config.c: In function 'In': /build/sra-sdk-2.9.3+dfsg/tools/vdb-config/vdb-config.c:854:49: warning: comparison between pointer and zero character constant [-Wpointer-compare] while (rc == 0 && (*read == NULL || read[0] == '\0')) { ^~ /build/sra-sdk-2.9.3+dfsg/tools/vdb-config/vdb-config.c:854:41: note: did you mean to dereference the pointer? while (rc == 0 && (*read == NULL || read[0] == '\0')) { ^ g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o interactive.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-config/interactive.cpp -D__mod_name__=tools/vdb-config -D__file_name__=interactive -D__file_ext__=cpp g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-config -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o vdb-config-model.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-config/vdb-config-model.cpp -D__mod_name__=tools/vdb-config -D__file_name__=vdb-config-model -D__file_ext__=cpp ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ g++ -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-config.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now configure.o util.o vdb-config.o interactive.o vdb-config-model.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltui_cpp -ltui -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-config.2.9.3 vdb-config.2 ln -s vdb-config.2 vdb-config make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-config' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-config' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/align-info' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-info' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/align-info/linux -I/build/sra-sdk-2.9.3+dfsg/tools/align-info/unix -I/build/sra-sdk-2.9.3+dfsg/tools/align-info -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o align-info.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/align-info/align-info.c -D__mod_name__=tools/align-info -D__file_name__=align-info -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/align-info.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now align-info.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s align-info.2.9.3 align-info.2 ln -s align-info.2 align-info make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-info' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/align-info' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/qual-recalib-stat' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/std-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/qual-recalib-stat' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/prefetch' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/prefetch' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/prefetch/linux -I/build/sra-sdk-2.9.3+dfsg/tools/prefetch/unix -I/build/sra-sdk-2.9.3+dfsg/tools/prefetch -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o prefetch.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/prefetch/prefetch.c -D__mod_name__=tools/prefetch -D__file_name__=prefetch -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/prefetch/linux -I/build/sra-sdk-2.9.3+dfsg/tools/prefetch/unix -I/build/sra-sdk-2.9.3+dfsg/tools/prefetch -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o kfile-no-q.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/prefetch/kfile-no-q.c -D__mod_name__=tools/prefetch -D__file_name__=kfile-no-q -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/prefetch.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now prefetch.o kfile-no-q.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s prefetch.2.9.3 prefetch.2 ln -s prefetch.2 prefetch make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/prefetch' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/prefetch' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-decrypt' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-decrypt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/vdb-decrypt.c -D__mod_name__=tools/vdb-decrypt -D__file_name__=vdb-decrypt -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o shared.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/shared.c -D__mod_name__=tools/vdb-decrypt -D__file_name__=shared -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/shared.c:98:19: warning: 'CacheLockExt' defined but not used [-Wunused-const-variable=] static const char CacheLockExt[] = ".cache.lock"; ^~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/shared.c:97:19: warning: 'CacheExt' defined but not used [-Wunused-const-variable=] static const char CacheExt[] = ".cache"; ^~~~~~~~ ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-decrypt.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now vdb-decrypt.o shared.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-decrypt.2.9.3 vdb-decrypt.2 ln -s vdb-decrypt.2 vdb-decrypt gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-encrypt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt/vdb-encrypt.c -D__mod_name__=tools/vdb-decrypt -D__file_name__=vdb-encrypt -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-encrypt.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now vdb-encrypt.o shared.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-encrypt.2.9.3 vdb-encrypt.2 ln -s vdb-encrypt.2 vdb-encrypt make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-decrypt' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-validate' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-validate.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-validate/vdb-validate.c -D__mod_name__=tools/vdb-validate -D__file_name__=vdb-validate -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/vdb-validate/vdb-validate.c: In function 'ric_align_generic.isra.10.constprop': /build/sra-sdk-2.9.3+dfsg/tools/vdb-validate/vdb-validate.c:1379:5: warning: 'last' may be used uninitialized in this function [-Wmaybe-uninitialized] for (chunk = startId; chunk < endId; ) { ^~~ ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-validate.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now vdb-validate.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-validate.2.9.3 vdb-validate.2 ln -s vdb-validate.2 vdb-validate g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o check-corrupt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-validate/check-corrupt.cpp -D__mod_name__=tools/vdb-validate -D__file_name__=check-corrupt -D__file_ext__=cpp ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ g++ -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/check-corrupt.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now check-corrupt.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s check-corrupt.2.9.3 check-corrupt.2 ln -s check-corrupt.2 check-corrupt make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-validate' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-sort' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-sort' gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o caps.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/caps.c -D__mod_name__=tools/sra-sort -D__file_name__=caps -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o mem.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/mem.c -D__mod_name__=tools/sra-sort -D__file_name__=mem -D__file_ext__=c In file included from /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/mem.c:28: /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/ctx.h:48:23: warning: '__file__' defined but not used [-Wunused-const-variable=] static const char __file__ [] = STRINGIZE_DEFINE ( __file_name__ ) ^~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/mem.c:33:1: note: in expansion of macro 'FILE_ENTRY' FILE_ENTRY ( mem ); ^~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/ctx.h:47:23: warning: '__mod__' defined but not used [-Wunused-const-variable=] static const char __mod__ [] = "tools/sra-sort"; \ ^~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/mem.c:33:1: note: in expansion of macro 'FILE_ENTRY' FILE_ENTRY ( mem ); ^~~~~~~~~~ gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o membank.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/membank.c -D__mod_name__=tools/sra-sort -D__file_name__=membank -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o paged-membank.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/paged-membank.c -D__mod_name__=tools/sra-sort -D__file_name__=paged-membank -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o paged-mmapbank.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/paged-mmapbank.c -D__mod_name__=tools/sra-sort -D__file_name__=paged-mmapbank -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o except.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/except.c -D__mod_name__=tools/sra-sort -D__file_name__=except -D__file_ext__=c In file included from /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/except.c:28: /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/ctx.h:48:23: warning: '__file__' defined but not used [-Wunused-const-variable=] static const char __file__ [] = STRINGIZE_DEFINE ( __file_name__ ) ^~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/except.c:42:1: note: in expansion of macro 'FILE_ENTRY' FILE_ENTRY ( except ); ^~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/ctx.h:47:23: warning: '__mod__' defined but not used [-Wunused-const-variable=] static const char __mod__ [] = "tools/sra-sort"; \ ^~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/except.c:42:1: note: in expansion of macro 'FILE_ENTRY' FILE_ENTRY ( except ); ^~~~~~~~~~ gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o idx-mapping.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/idx-mapping.c -D__mod_name__=tools/sra-sort -D__file_name__=idx-mapping -D__file_ext__=c In file included from /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/idx-mapping.c:28: /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/ctx.h:48:23: warning: '__file__' defined but not used [-Wunused-const-variable=] static const char __file__ [] = STRINGIZE_DEFINE ( __file_name__ ) ^~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/idx-mapping.c:32:1: note: in expansion of macro 'FILE_ENTRY' FILE_ENTRY ( idx-mapping ); ^~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/ctx.h:47:23: warning: '__mod__' defined but not used [-Wunused-const-variable=] static const char __mod__ [] = "tools/sra-sort"; \ ^~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/idx-mapping.c:32:1: note: in expansion of macro 'FILE_ENTRY' FILE_ENTRY ( idx-mapping ); ^~~~~~~~~~ gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o map-file.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/map-file.c -D__mod_name__=tools/sra-sort -D__file_name__=map-file -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o col-pair.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/col-pair.c -D__mod_name__=tools/sra-sort -D__file_name__=col-pair -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o row-set.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/row-set.c -D__mod_name__=tools/sra-sort -D__file_name__=row-set -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o simple-row-set.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/simple-row-set.c -D__mod_name__=tools/sra-sort -D__file_name__=simple-row-set -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o mapping-row-set.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/mapping-row-set.c -D__mod_name__=tools/sra-sort -D__file_name__=mapping-row-set -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sorting-row-set.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/sorting-row-set.c -D__mod_name__=tools/sra-sort -D__file_name__=sorting-row-set -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o meta-pair.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/meta-pair.c -D__mod_name__=tools/sra-sort -D__file_name__=meta-pair -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o dir-pair.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/dir-pair.c -D__mod_name__=tools/sra-sort -D__file_name__=dir-pair -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o tbl-pair.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/tbl-pair.c -D__mod_name__=tools/sra-sort -D__file_name__=tbl-pair -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o db-pair.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/db-pair.c -D__mod_name__=tools/sra-sort -D__file_name__=db-pair -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o glob-poslen.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/glob-poslen.c -D__mod_name__=tools/sra-sort -D__file_name__=glob-poslen -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o poslen-col-pair.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/poslen-col-pair.c -D__mod_name__=tools/sra-sort -D__file_name__=poslen-col-pair -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ref-alignid-col.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/ref-alignid-col.c -D__mod_name__=tools/sra-sort -D__file_name__=ref-alignid-col -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o buff-writer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/buff-writer.c -D__mod_name__=tools/sra-sort -D__file_name__=buff-writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o id-mapper-col.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/id-mapper-col.c -D__mod_name__=tools/sra-sort -D__file_name__=id-mapper-col -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o capture-first-half-aligned.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/capture-first-half-aligned.c -D__mod_name__=tools/sra-sort -D__file_name__=capture-first-half-aligned -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o run.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/run.c -D__mod_name__=tools/sra-sort -D__file_name__=run -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sra-sort.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/sra-sort.c -D__mod_name__=tools/sra-sort -D__file_name__=sra-sort -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o xcheck-ref-align.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/xcheck-ref-align.c -D__mod_name__=tools/sra-sort -D__file_name__=xcheck-ref-align -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o csra-tbl.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/csra-tbl.c -D__mod_name__=tools/sra-sort -D__file_name__=csra-tbl -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o csra-pair.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/csra-pair.c -D__mod_name__=tools/sra-sort -D__file_name__=csra-pair -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sra-sort.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now caps.o mem.o membank.o paged-membank.o paged-mmapbank.o except.o idx-mapping.o map-file.o col-pair.o row-set.o simple-row-set.o mapping-row-set.o sorting-row-set.o meta-pair.o dir-pair.o tbl-pair.o db-pair.o glob-poslen.o poslen-col-pair.o ref-alignid-col.o buff-writer.o id-mapper-col.o capture-first-half-aligned.o run.o sra-sort.o xcheck-ref-align.o csra-tbl.o csra-pair.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s sra-sort.2.9.3 sra-sort.2 ln -s sra-sort.2 sra-sort gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o csra-tbl.cg.o -DSEQUENCE_BEFORE_SECONDARY=0 /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/csra-tbl.c -D__mod_name__=tools/sra-sort -D__file_name__=csra-tbl -D__file_ext__=c gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o csra-pair.cg.o -DSEQUENCE_BEFORE_SECONDARY=0 /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/csra-pair.c -D__mod_name__=tools/sra-sort -D__file_name__=csra-pair -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sra-sort-cg.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now caps.o mem.o membank.o paged-membank.o paged-mmapbank.o except.o idx-mapping.o map-file.o col-pair.o row-set.o simple-row-set.o mapping-row-set.o sorting-row-set.o meta-pair.o dir-pair.o tbl-pair.o db-pair.o glob-poslen.o poslen-col-pair.o ref-alignid-col.o buff-writer.o id-mapper-col.o capture-first-half-aligned.o run.o sra-sort.o xcheck-ref-align.o csra-tbl.cg.o csra-pair.cg.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s sra-sort-cg.2.9.3 sra-sort-cg.2 ln -s sra-sort-cg.2 sra-sort-cg make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-sort' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-sort' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/cache-mgr' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cache-mgr' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cache-mgr/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cache-mgr/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cache-mgr -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cache-mgr.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cache-mgr/cache-mgr.c -D__mod_name__=tools/cache-mgr -D__file_name__=cache-mgr -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/cache-mgr.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now cache-mgr.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s cache-mgr.2.9.3 cache-mgr.2 ln -s cache-mgr.2 cache-mgr make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cache-mgr' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/cache-mgr' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vcf-loader' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vcf-grammar.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-grammar.c -D__mod_name__=tools/vcf-loader -D__file_name__=vcf-grammar -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vcf-lex.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-lex.c -D__mod_name__=tools/vcf-loader -D__file_name__=vcf-lex -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-lex.c:1544:17: warning: 'yyunput' defined but not used [-Wunused-function] static void yyunput (int c, register char * yy_bp , yyscan_t yyscanner) ^~~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vcf-reader.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-reader.c -D__mod_name__=tools/vcf-loader -D__file_name__=vcf-reader -D__file_ext__=c In file included from /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-reader.c:30: /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-reader.c: In function 'OpenDataLine': /usr/include/ncbi-vdb/klib/rc.h:92:9: warning: statement with no effect [-Wunused-value] ( rc_t ) ( rc ) ^~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-reader.c:231:13: note: in expansion of macro 'SET_RC_FILE_FUNC_LINE' SET_RC_FILE_FUNC_LINE(rc); ^~~~~~~~~~~~~~~~~~~~~ /usr/include/ncbi-vdb/klib/rc.h:92:9: warning: statement with no effect [-Wunused-value] ( rc_t ) ( rc ) ^~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-reader.c:237:9: note: in expansion of macro 'SET_RC_FILE_FUNC_LINE' SET_RC_FILE_FUNC_LINE(rc); ^~~~~~~~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-reader.c: In function 'DataItem': /usr/include/ncbi-vdb/klib/rc.h:92:9: warning: statement with no effect [-Wunused-value] ( rc_t ) ( rc ) ^~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-reader.c:307:17: note: in expansion of macro 'SET_RC_FILE_FUNC_LINE' SET_RC_FILE_FUNC_LINE(rc); ^~~~~~~~~~~~~~~~~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vcf-database.pic.o -fPIC -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall -D_LIBRARY /build/sra-sdk-2.9.3+dfsg/tools/vcf-loader/vcf-database.c -D__mod_name__=tools/vcf-loader -D__file_name__=vcf-database -D__file_ext__=c ar -rc /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib/libvcfloader.a vcf-grammar.pic.o vcf-lex.pic.o vcf-reader.pic.o vcf-database.pic.o make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vcf-loader' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/copycat' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/copycat' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/copycat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o copycat.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/copycat/copycat.c -D__mod_name__=tools/copycat -D__file_name__=copycat -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/copycat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ccfileformat.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/copycat/ccfileformat.c -D__mod_name__=tools/copycat -D__file_name__=ccfileformat -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/copycat/ccfileformat.c:127:19: warning: 'magicpath' defined but not used [-Wunused-const-variable=] static const char magicpath [] = "/usr/share/misc/magic"; ^~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/copycat/ccfileformat.c:105:19: warning: 'classtable' defined but not used [-Wunused-const-variable=] static const char classtable [] = ^~~~~~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/copycat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cccat.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/copycat/cccat.c -D__mod_name__=tools/copycat -D__file_name__=cccat -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/copycat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cctree.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/copycat/cctree.c -D__mod_name__=tools/copycat -D__file_name__=cctree -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/copycat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cctree-dump.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/copycat/cctree-dump.c -D__mod_name__=tools/copycat -D__file_name__=cctree-dump -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/copycat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cctar.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/copycat/cctar.c -D__mod_name__=tools/copycat -D__file_name__=cctar -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/copycat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ccsra.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/copycat/ccsra.c -D__mod_name__=tools/copycat -D__file_name__=ccsra -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/copycat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ccsubchunk.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/copycat/ccsubchunk.c -D__mod_name__=tools/copycat -D__file_name__=ccsubchunk -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/copycat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/copycat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ccfile.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/copycat/ccfile.c -D__mod_name__=tools/copycat -D__file_name__=ccfile -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/copycat.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now copycat.o ccfileformat.o cccat.o cctree.o cctree-dump.o cctar.o ccsra.o ccsubchunk.o ccfile.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -lkff -lmagic -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s copycat.2.9.3 copycat.2 ln -s copycat.2 copycat make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/copycat' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/copycat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fasterq-dump' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o helper.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/helper.c -D__mod_name__=tools/fasterq-dump -D__file_name__=helper -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o progress_thread.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/progress_thread.c -D__mod_name__=tools/fasterq-dump -D__file_name__=progress_thread -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cleanup_task.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/cleanup_task.c -D__mod_name__=tools/fasterq-dump -D__file_name__=cleanup_task -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o index.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/index.c -D__mod_name__=tools/fasterq-dump -D__file_name__=index -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o lookup_writer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/lookup_writer.c -D__mod_name__=tools/fasterq-dump -D__file_name__=lookup_writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o lookup_reader.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/lookup_reader.c -D__mod_name__=tools/fasterq-dump -D__file_name__=lookup_reader -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/lookup_reader.c: In function 'full_table_seek': /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/lookup_reader.c:176:18: warning: 'found_len' may be used uninitialized in this function [-Wmaybe-uninitialized] curr += found_len; ~~~~~^~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/lookup_reader.c:168:16: note: 'found_len' was declared here size_t found_len; ^~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/lookup_reader.c: In function 'seek_lookup_reader': /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/lookup_reader.c:176:18: warning: 'found_len' may be used uninitialized in this function [-Wmaybe-uninitialized] curr += found_len; ~~~~~^~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/lookup_reader.c:168:16: note: 'found_len' was declared here size_t found_len; ^~~~~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o file_printer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/file_printer.c -D__mod_name__=tools/fasterq-dump -D__file_name__=file_printer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o merge_sorter.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/merge_sorter.c -D__mod_name__=tools/fasterq-dump -D__file_name__=merge_sorter -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sorter.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/sorter.c -D__mod_name__=tools/fasterq-dump -D__file_name__=sorter -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cmn_iter.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/cmn_iter.c -D__mod_name__=tools/fasterq-dump -D__file_name__=cmn_iter -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o raw_read_iter.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/raw_read_iter.c -D__mod_name__=tools/fasterq-dump -D__file_name__=raw_read_iter -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o special_iter.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/special_iter.c -D__mod_name__=tools/fasterq-dump -D__file_name__=special_iter -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq_iter.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/fastq_iter.c -D__mod_name__=tools/fasterq-dump -D__file_name__=fastq_iter -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o join.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/join.c -D__mod_name__=tools/fasterq-dump -D__file_name__=join -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o tbl_join.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/tbl_join.c -D__mod_name__=tools/fasterq-dump -D__file_name__=tbl_join -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o join_results.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/join_results.c -D__mod_name__=tools/fasterq-dump -D__file_name__=join_results -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o temp_registry.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/temp_registry.c -D__mod_name__=tools/fasterq-dump -D__file_name__=temp_registry -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o copy_machine.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/copy_machine.c -D__mod_name__=tools/fasterq-dump -D__file_name__=copy_machine -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o concatenator.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/concatenator.c -D__mod_name__=tools/fasterq-dump -D__file_name__=concatenator -D__file_ext__=c In file included from /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/concatenator.h:43, from /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/concatenator.c:27: /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/concatenator.c: In function 'execute_concat_compressed': /usr/include/ncbi-vdb/kfs/directory.h:592:42: warning: 'fmt' may be used uninitialized in this function [-Wmaybe-uninitialized] #define KDirectoryCreateFile NAME_VERS ( KDirectoryCreateFile , KDIRECTORY_VERS ) ^~~~~~~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/concatenator.c:139:22: note: 'fmt' was declared here const char * fmt; ^~~ In file included from /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/concatenator.h:43, from /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/concatenator.c:27: /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/concatenator.c: In function 'execute_concat': /usr/include/ncbi-vdb/kfs/directory.h:592:42: warning: 'fmt' may be used uninitialized in this function [-Wmaybe-uninitialized] #define KDirectoryCreateFile NAME_VERS ( KDirectoryCreateFile , KDIRECTORY_VERS ) ^~~~~~~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/concatenator.c:139:22: note: 'fmt' was declared here const char * fmt; ^~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fasterq-dump.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump/fasterq-dump.c -D__mod_name__=tools/fasterq-dump -D__file_name__=fasterq-dump -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/fasterq-dump.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now helper.o progress_thread.o cleanup_task.o index.o lookup_writer.o lookup_reader.o file_printer.o merge_sorter.o sorter.o cmn_iter.o raw_read_iter.o special_iter.o fastq_iter.o join.o tbl_join.o join_results.o temp_registry.o copy_machine.o concatenator.o fasterq-dump.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s fasterq-dump.2.9.3 fasterq-dump.2 ln -s fasterq-dump.2 fasterq-dump make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fasterq-dump' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-load' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-load' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pstring.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/pstring.c -D__mod_name__=tools/sra-load -D__file_name__=pstring -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o common-xml.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/common-xml.c -D__mod_name__=tools/sra-load -D__file_name__=common-xml -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o experiment-xml.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/experiment-xml.c -D__mod_name__=tools/sra-load -D__file_name__=experiment-xml -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/sra-load/experiment-xml.c: In function 'Experiment_FillSegAgrep': /build/sra-sdk-2.9.3+dfsg/tools/sra-load/experiment-xml.c:711:21: warning: variable 'b' set but not used [-Wunused-but-set-variable] const char* b = NULL; ^ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o run-xml.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/run-xml.c -D__mod_name__=tools/sra-load -D__file_name__=run-xml -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o loader-file.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/loader-file.c -D__mod_name__=tools/sra-load -D__file_name__=loader-file -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o loader-fmt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/loader-fmt.c -D__mod_name__=tools/sra-load -D__file_name__=loader-fmt -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sra-writer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/sra-writer.c -D__mod_name__=tools/sra-load -D__file_name__=sra-writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o loader.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/loader.c -D__mod_name__=tools/sra-load -D__file_name__=loader -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o writer-illumina.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/writer-illumina.c -D__mod_name__=tools/sra-load -D__file_name__=writer-illumina -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o writer-454.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/writer-454.c -D__mod_name__=tools/sra-load -D__file_name__=writer-454 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o writer-ion-torrent.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/writer-ion-torrent.c -D__mod_name__=tools/sra-load -D__file_name__=writer-ion-torrent -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastq-fmt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/fastq-fmt.c -D__mod_name__=tools/sra-load -D__file_name__=fastq-fmt -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/fastq-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now pstring.o common-xml.o experiment-xml.o run-xml.o loader-file.o loader-fmt.o sra-writer.o loader.o writer-illumina.o writer-454.o writer-ion-torrent.o fastq-fmt.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -lkxfs -lkxml -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s fastq-load.2.9.3 fastq-load.2 ln -s fastq-load.2 fastq-load gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o illumina-fmt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/illumina-fmt.c -D__mod_name__=tools/sra-load -D__file_name__=illumina-fmt -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/illumina-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now pstring.o common-xml.o experiment-xml.o run-xml.o loader-file.o loader-fmt.o sra-writer.o loader.o writer-illumina.o illumina-fmt.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -lkxfs -lkxml -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s illumina-load.2.9.3 illumina-load.2 ln -s illumina-load.2 illumina-load gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o srf.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/srf.c -D__mod_name__=tools/sra-load -D__file_name__=srf -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o srf-fmt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/srf-fmt.c -D__mod_name__=tools/sra-load -D__file_name__=srf-fmt -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ztr-illumina.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-illumina.c -D__mod_name__=tools/sra-load -D__file_name__=ztr-illumina -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-illumina.c: In function 'undo_mode_80': /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-illumina.c:438:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (dst == NULL) ^~ /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-illumina.c:441:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' for (i = 0; i != basecount; ++i, u += 4, dst += 4) { ^~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o srf-illumina.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/srf-illumina.c -D__mod_name__=tools/sra-load -D__file_name__=srf-illumina -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o writer-absolid.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/writer-absolid.c -D__mod_name__=tools/sra-load -D__file_name__=writer-absolid -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ztr-absolid.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-absolid.c -D__mod_name__=tools/sra-load -D__file_name__=ztr-absolid -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ztr-huffman.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-huffman.c -D__mod_name__=tools/sra-load -D__file_name__=ztr-huffman -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-huffman.c: In function 'huffman_codes257': /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-huffman.c:127:2: warning: 'memset' used with length equal to number of elements without multiplication by element size [-Wmemset-elt-size] memset(code, 0, 32); ^~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-huffman.c: In function 'huffman_codes19': /build/sra-sdk-2.9.3+dfsg/tools/sra-load/ztr-huffman.c:151:2: warning: 'memset' used with length equal to number of elements without multiplication by element size [-Wmemset-elt-size] memset(code, 0, 32); ^~~~~~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o srf-absolid.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/srf-absolid.c -D__mod_name__=tools/sra-load -D__file_name__=srf-absolid -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/srf-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now pstring.o common-xml.o experiment-xml.o run-xml.o loader-file.o loader-fmt.o sra-writer.o loader.o srf.o srf-fmt.o writer-illumina.o ztr-illumina.o srf-illumina.o writer-absolid.o ztr-absolid.o ztr-huffman.o srf-absolid.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -lkxfs -lkxml -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s srf-load.2.9.3 srf-load.2 ln -s srf-load.2 srf-load gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o absolid-fmt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/absolid-fmt.c -D__mod_name__=tools/sra-load -D__file_name__=absolid-fmt -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/abi-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now pstring.o common-xml.o experiment-xml.o run-xml.o loader-file.o loader-fmt.o sra-writer.o loader.o writer-absolid.o absolid-fmt.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -lkxfs -lkxml -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s abi-load.2.9.3 abi-load.2 ln -s abi-load.2 abi-load gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o sff-fmt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/sff-fmt.c -D__mod_name__=tools/sra-load -D__file_name__=sff-fmt -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sff-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now pstring.o common-xml.o experiment-xml.o run-xml.o loader-file.o loader-fmt.o sra-writer.o loader.o writer-454.o writer-ion-torrent.o sff-fmt.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -lkxfs -lkxml -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s sff-load.2.9.3 sff-load.2 ln -s sff-load.2 sff-load gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o writer-helicos.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/writer-helicos.c -D__mod_name__=tools/sra-load -D__file_name__=writer-helicos -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o helicos-fmt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/helicos-fmt.c -D__mod_name__=tools/sra-load -D__file_name__=helicos-fmt -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/helicos-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now pstring.o common-xml.o experiment-xml.o run-xml.o loader-file.o loader-fmt.o sra-writer.o loader.o writer-helicos.o helicos-fmt.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -lkxfs -lkxml -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s helicos-load.2.9.3 helicos-load.2 ln -s helicos-load.2 helicos-load gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pacbio-fmt.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-load/pacbio-fmt.c -D__mod_name__=tools/sra-load -D__file_name__=pacbio-fmt -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/pacbio-loadxml.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now pstring.o common-xml.o experiment-xml.o run-xml.o loader-file.o loader-fmt.o sra-writer.o loader.o pacbio-fmt.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -lkxfs -lkxml -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s pacbio-loadxml.2.9.3 pacbio-loadxml.2 ln -s pacbio-loadxml.2 pacbio-loadxml make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-load' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-load' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/ccextract' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ccextract' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/ccextract/linux -I/build/sra-sdk-2.9.3+dfsg/tools/ccextract/unix -I/build/sra-sdk-2.9.3+dfsg/tools/ccextract -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o ccextract.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/ccextract/ccextract.c -D__mod_name__=tools/ccextract -D__file_name__=ccextract -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/ccextract.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now ccextract.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lkxfs -lkxml -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s ccextract.2.9.3 ccextract.2 ln -s ccextract.2 ccextract make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ccextract' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/ccextract' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/pacbio-load' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-context.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-context.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-context -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-tools.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-tools.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-tools -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-zmw.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-zmw.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-zmw -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-basecalls_cmn.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-basecalls_cmn.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-basecalls_cmn -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-sequence.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-sequence.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-sequence -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-consensus.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-consensus.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-consensus -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-consensus.c: In function 'check_Consensus_totalcount': /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-consensus.c:63:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if ( res ) ^~ /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-consensus.c:66:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' if ( res ) ^~ gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-passes.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-passes.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-passes -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-metrics.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-metrics.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-metrics -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-regions.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-regions.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-regions -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pl-progress.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pl-progress.c -D__mod_name__=tools/pacbio-load -D__file_name__=pl-progress -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o pacbio-load.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/pacbio-load/pacbio-load.c -D__mod_name__=tools/pacbio-load -D__file_name__=pacbio-load -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/pacbio-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now pl-context.o pl-tools.o pl-zmw.o pl-basecalls_cmn.o pl-sequence.o pl-consensus.o pl-passes.o pl-metrics.o pl-regions.o pl-progress.o pacbio-load.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lkdf5 -lload -lhdf5_serial -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s pacbio-load.2.9.3 pacbio-load.2 ln -s pacbio-load.2 pacbio-load make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/pacbio-load' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/fuse' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fuse' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o log.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/log.c -D__mod_name__=tools/fuse -D__file_name__=log -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o node.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/node.c -D__mod_name__=tools/fuse -D__file_name__=node -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o accessor.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/accessor.c -D__mod_name__=tools/fuse -D__file_name__=accessor -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o kfile-accessor.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/kfile-accessor.c -D__mod_name__=tools/fuse -D__file_name__=kfile-accessor -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o remote-xml.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/remote-xml.c -D__mod_name__=tools/fuse -D__file_name__=remote-xml -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o remote-cache.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/remote-cache.c -D__mod_name__=tools/fuse -D__file_name__=remote-cache -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o remote-link.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/remote-link.c -D__mod_name__=tools/fuse -D__file_name__=remote-link -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o remote-file.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/remote-file.c -D__mod_name__=tools/fuse -D__file_name__=remote-file -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o remote-directory.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/remote-directory.c -D__mod_name__=tools/fuse -D__file_name__=remote-directory -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o remote-fuser-sys.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/unix/remote-fuser-sys.c -D__mod_name__=tools/fuse -D__file_name__=remote-fuser-sys -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/linux -I/build/sra-sdk-2.9.3+dfsg/tools/fuse/unix -I/build/sra-sdk-2.9.3+dfsg/tools/fuse -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o remote-fuser.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/fuse/remote-fuser.c -D__mod_name__=tools/fuse -D__file_name__=remote-fuser -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/remote-fuser.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now log.o node.o accessor.o kfile-accessor.o remote-xml.o remote-cache.o remote-link.o remote-file.o remote-directory.o remote-fuser-sys.o remote-fuser.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -lfuse -lrt -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s remote-fuser.2.9.3 remote-fuser.2 ln -s remote-fuser.2 remote-fuser make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fuse' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/fuse' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-diff' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o namelist_tools.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-diff/namelist_tools.c -D__mod_name__=tools/vdb-diff -D__file_name__=namelist_tools -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o coldefs.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-diff/coldefs.c -D__mod_name__=tools/vdb-diff -D__file_name__=coldefs -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb-diff.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-diff/vdb-diff.c -D__mod_name__=tools/vdb-diff -D__file_name__=vdb-diff -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-diff.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now namelist_tools.o coldefs.o vdb-diff.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-diff.2.9.3 vdb-diff.2 ln -s vdb-diff.2 vdb-diff make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-diff' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/kget' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kget' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/kget/linux -I/build/sra-sdk-2.9.3+dfsg/tools/kget/unix -I/build/sra-sdk-2.9.3+dfsg/tools/kget -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o kget.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/kget/kget.c -D__mod_name__=tools/kget -D__file_name__=kget -D__file_ext__=c In file included from /build/sra-sdk-2.9.3+dfsg/tools/kget/kget.c:36: /build/sra-sdk-2.9.3+dfsg/tools/kget/kget.c: In function 'full_download.isra.5': /usr/include/ncbi-vdb/kfs/directory.h:592:42: warning: 'outfile' may be used uninitialized in this function [-Wmaybe-uninitialized] #define KDirectoryCreateFile NAME_VERS ( KDirectoryCreateFile , KDIRECTORY_VERS ) ^~~~~~~~~~~~~~~~~~~~ /build/sra-sdk-2.9.3+dfsg/tools/kget/kget.c:704:48: note: 'outfile' was declared here char * outfile; ^~~~~~~ ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/kget.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now kget.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s kget.2.9.3 kget.2 ln -s kget.2 kget make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kget' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/kget' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ngs-pileup' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/std-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ngs-pileup' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-sql' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o vdb_shell.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-sql/vdb_shell.c -D__mod_name__=tools/vdb-sql -D__file_name__=vdb_shell -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-sql.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now vdb_shell.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lvdb-sqlite -Wl,-Bdynamic -lz -lbz2 -ldl -lpthread -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s vdb-sql.2.9.3 vdb-sql.2 ln -s vdb-sql.2 vdb-sql gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql/linux -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql/unix -I/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o fastconv.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/vdb-sql/fastconv.c -D__mod_name__=tools/vdb-sql -D__file_name__=fastconv -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/vdb-sql/fastconv.c: In function 'convert': /build/sra-sdk-2.9.3+dfsg/tools/vdb-sql/fastconv.c:393:47: warning: passing argument 2 of 'iterate_SRC_SEQ' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] rc = iterate_SRC_SEQ( db, acc, wrt ); ^~~ /build/sra-sdk-2.9.3+dfsg/tools/vdb-sql/fastconv.c:277:51: note: expected 'char *' but argument is of type 'const char *' static rc_t iterate_SRC_SEQ( sqlite3 * db, char * acc, writer * wrt ) ~~~~~~~^~~ ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/fastconv -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now fastconv.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp-norsrc -ltk-version -lvdb-sqlite -Wl,-Bdynamic -lz -lbz2 -ldl -lpthread -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-sql' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/cg-load' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cg-load' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o cg-load.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/cg-load.c -D__mod_name__=tools/cg-load -D__file_name__=cg-load -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o factory-evidence-intervals.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/factory-evidence-intervals.c -D__mod_name__=tools/cg-load -D__file_name__=factory-evidence-intervals -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o factory-evidence-dnbs.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/factory-evidence-dnbs.c -D__mod_name__=tools/cg-load -D__file_name__=factory-evidence-dnbs -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o factory-mappings.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/factory-mappings.c -D__mod_name__=tools/cg-load -D__file_name__=factory-mappings -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o factory-reads.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/factory-reads.c -D__mod_name__=tools/cg-load -D__file_name__=factory-reads -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o factory-tag-lfr.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/factory-tag-lfr.c -D__mod_name__=tools/cg-load -D__file_name__=factory-tag-lfr -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o f1_3.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/f1_3.c -D__mod_name__=tools/cg-load -D__file_name__=f1_3 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o f1_5.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/f1_5.c -D__mod_name__=tools/cg-load -D__file_name__=f1_5 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o f1_7.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/f1_7.c -D__mod_name__=tools/cg-load -D__file_name__=f1_7 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o f2_0.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/f2_0.c -D__mod_name__=tools/cg-load -D__file_name__=f2_0 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o f2_2.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/f2_2.c -D__mod_name__=tools/cg-load -D__file_name__=f2_2 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o f2_4.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/f2_4.c -D__mod_name__=tools/cg-load -D__file_name__=f2_4 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o f2_5.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/f2_5.c -D__mod_name__=tools/cg-load -D__file_name__=f2_5 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o file.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/file.c -D__mod_name__=tools/cg-load -D__file_name__=file -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o file-version-factory.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/file-version-factory.c -D__mod_name__=tools/cg-load -D__file_name__=file-version-factory -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o formats.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/formats.c -D__mod_name__=tools/cg-load -D__file_name__=formats -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o writer-algn.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/writer-algn.c -D__mod_name__=tools/cg-load -D__file_name__=writer-algn -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o writer-evidence-dnbs.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/writer-evidence-dnbs.c -D__mod_name__=tools/cg-load -D__file_name__=writer-evidence-dnbs -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o writer-evidence-intervals.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/writer-evidence-intervals.c -D__mod_name__=tools/cg-load -D__file_name__=writer-evidence-intervals -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/linux -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load/unix -I/build/sra-sdk-2.9.3+dfsg/tools/cg-load -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -g -O2 -ffile-prefix-map=/build/sra-sdk-2.9.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -MD -o writer-seq.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/cg-load/writer-seq.c -D__mod_name__=tools/cg-load -D__file_name__=writer-seq -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/cg-load.2.9.3 -DNDEBUG -m64 -Wl,-z,relro -Wl,-z,now cg-load.o factory-evidence-intervals.o factory-evidence-dnbs.o factory-mappings.o factory-reads.o factory-tag-lfr.o f1_3.o f1_5.o f1_7.o f2_0.o f2_2.o f2_4.o f2_5.o file.o file-version-factory.o formats.o writer-algn.o writer-evidence-dnbs.o writer-evidence-intervals.o writer-seq.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lload -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s cg-load.2.9.3 cg-load.2 ln -s cg-load.2 cg-load make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cg-load' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/cg-load' make[3]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools' make[2]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' make[1]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/sra-sdk-2.9.3+dfsg' dh_auto_test --no-parallel || true make -j1 test VERBOSE=1 make[2]: Entering directory '/build/sra-sdk-2.9.3+dfsg' make[3]: Entering directory '/build/sra-sdk-2.9.3+dfsg/shared' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/shared' make[4]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/shared' make[3]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/shared' make[3]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/util' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/util' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o crc32sum.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/crc32sum.c -D__mod_name__=tools/util -D__file_name__=crc32sum -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/crc32sum -DNDEBUG -m64 crc32sum.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o kdb-index.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/kdb-index.c -D__mod_name__=tools/util -D__file_name__=kdb-index -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/kdb-index.2.9.3 -DNDEBUG -m64 kdb-index.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s kdb-index.2.9.3 kdb-index.2 ln -s kdb-index.2 kdb-index gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o pacbio-correct.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/pacbio-correct.c -D__mod_name__=tools/util -D__file_name__=pacbio-correct -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/pacbio-correct.2.9.3 -DNDEBUG -m64 pacbio-correct.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s pacbio-correct.2.9.3 pacbio-correct.2 ln -s pacbio-correct.2 pacbio-correct gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o schema-replace.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/schema-replace.c -D__mod_name__=tools/util -D__file_name__=schema-replace -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/schema-replace.2.9.3 -DNDEBUG -m64 schema-replace.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s schema-replace.2.9.3 schema-replace.2 ln -s schema-replace.2 schema-replace gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o sortreadtest.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/sortreadtest.c -D__mod_name__=tools/util -D__file_name__=sortreadtest -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sortreadtest -DNDEBUG -m64 sortreadtest.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o rowwritetest.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/rowwritetest.c -D__mod_name__=tools/util -D__file_name__=rowwritetest -D__file_ext__=c /build/sra-sdk-2.9.3+dfsg/tools/util/rowwritetest.c: In function 'run': /build/sra-sdk-2.9.3+dfsg/tools/util/rowwritetest.c:287: warning: "STATUS" redefined #define STATUS(action) (action FORMAT, tablePath, name) In file included from /build/sra-sdk-2.9.3+dfsg/tools/util/rowwritetest.c:11: /usr/include/ncbi-vdb/klib/status.h:138: note: this is the location of the previous definition #define STATUS( lvl, ... ) \ ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/rowwritetest -DNDEBUG -m64 rowwritetest.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o samview.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/samview.c -D__mod_name__=tools/util -D__file_name__=samview -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/samview -DNDEBUG -m64 samview.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o testld.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/testld.c -D__mod_name__=tools/util -D__file_name__=testld -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/testld -DNDEBUG -m64 testld.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/util/linux -I/build/sra-sdk-2.9.3+dfsg/tools/util/unix -I/build/sra-sdk-2.9.3+dfsg/tools/util -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o txt2kdb.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/util/txt2kdb.c -D__mod_name__=tools/util -D__file_name__=txt2kdb -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/txt2kdb -DNDEBUG -m64 txt2kdb.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/util' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/util' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/align-cache' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-cache' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-cache' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/align-cache' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/kar' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kar' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kar' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/kar' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/kqsh' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kqsh' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kqsh' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/kqsh' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-dump' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-dump' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-dump' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-dump' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-dump' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-dump' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-pileup' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-pileup' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/bam-loader' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/bam-loader' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/linux -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader/unix -I/build/sra-sdk-2.9.3+dfsg/tools/bam-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o samview.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/bam-loader/samview.c -D__mod_name__=tools/bam-loader -D__file_name__=samview -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ g++ -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/samview.2.9.3 -DNDEBUG -m64 bam.o samview.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s samview.2.9.3 samview.2 ln -s samview.2 samview make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/bam-loader' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/bam-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fastq-loader' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fastq-loader' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/srapath' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/srapath' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/srapath' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/srapath' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-stat' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-stat' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-stat' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-copy' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-copy' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/rd-filter-redact' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact/linux -I/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact/unix -I/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o test-read-write-cursor.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact/test-read-write-cursor.c -D__mod_name__=tools/rd-filter-redact -D__file_name__=test-read-write-cursor -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/test-read-write-cursor.2.9.3 -DNDEBUG -m64 test-read-write-cursor.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -Wl,-Bdynamic -lncbi-wvdb -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s test-read-write-cursor.2.9.3 test-read-write-cursor.2 ln -s test-read-write-cursor.2 test-read-write-cursor make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/rd-filter-redact' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-config' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-config' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-config' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-config' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/align-info' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-info' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-info' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/align-info' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/qual-recalib-stat' gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o namelist_tools.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/namelist_tools.c -D__mod_name__=tools/qual-recalib-stat -D__file_name__=namelist_tools -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o context.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/context.c -D__mod_name__=tools/qual-recalib-stat -D__file_name__=context -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o columns.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/columns.c -D__mod_name__=tools/qual-recalib-stat -D__file_name__=columns -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o ref_exclude.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/ref_exclude.c -D__mod_name__=tools/qual-recalib-stat -D__file_name__=ref_exclude -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o spot_position.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/spot_position.c -D__mod_name__=tools/qual-recalib-stat -D__file_name__=spot_position -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o stat_mod_2.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/stat_mod_2.c -D__mod_name__=tools/qual-recalib-stat -D__file_name__=stat_mod_2 -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o reader.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/reader.c -D__mod_name__=tools/qual-recalib-stat -D__file_name__=reader -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o writer.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/writer.c -D__mod_name__=tools/qual-recalib-stat -D__file_name__=writer -D__file_ext__=c gcc -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/linux -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/unix -I/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o qual-recalib-stat.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat/qual-recalib-stat.c -D__mod_name__=tools/qual-recalib-stat -D__file_name__=qual-recalib-stat -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/qual-recalib-stat.2.9.3 -DNDEBUG -m64 namelist_tools.o context.o columns.o ref_exclude.o spot_position.o stat_mod_2.o reader.o writer.o qual-recalib-stat.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -ltk-version -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s qual-recalib-stat.2.9.3 qual-recalib-stat.2 ln -s qual-recalib-stat.2 qual-recalib-stat make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/qual-recalib-stat' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/prefetch' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/prefetch' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/prefetch' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/prefetch' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-decrypt' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-decrypt' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-validate' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-validate' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-sort' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-sort' gcc -c -DNDEBUG -m64 -std=gnu99 -fgnu89-inline -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/linux -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort/unix -I/build/sra-sdk-2.9.3+dfsg/tools/sra-sort -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o dump-blob-boundaries.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/sra-sort/dump-blob-boundaries.c -D__mod_name__=tools/sra-sort -D__file_name__=dump-blob-boundaries -D__file_ext__=c ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ gcc -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/dump-blob-boundaries -DNDEBUG -m64 dump-blob-boundaries.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lncbi-vdb -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-sort' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-sort' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/cache-mgr' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cache-mgr' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cache-mgr' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/cache-mgr' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vcf-loader' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vcf-loader' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/copycat' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/copycat' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/copycat' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/copycat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fasterq-dump' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fasterq-dump' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-load' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-load' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-load' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-load' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/ccextract' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ccextract' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ccextract' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/ccextract' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/pacbio-load' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/pacbio-load' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/fuse' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fuse' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fuse' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/fuse' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-diff' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-diff' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/kget' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kget' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kget' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/kget' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ngs-pileup' g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -I /build/sra-sdk-2.9.3+dfsg/ngs/ngs-c++ -MD -o ngs-pileup.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup/ngs-pileup.cpp -D__mod_name__=tools/ngs-pileup -D__file_name__=ngs-pileup -D__file_ext__=cpp In file included from /build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup/ngs-pileup.cpp:31: /usr/include/ncbi-vdb/ngs/ncbi/NGS.hpp:81:13: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] throw ( ErrorMsg ); ^~~~~ /usr/include/ncbi-vdb/ngs/ncbi/NGS.hpp:90:13: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] throw ( ErrorMsg ); ^~~~~ /build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup/ngs-pileup.cpp: In member function 'void NGS_Pileup::TargetReference::Process(std::ostream&)': /build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup/ngs-pileup.cpp:97:22: warning: unused variable 'next' [-Wunused-variable] bool next = i -> nextPileup (); ^~~~ g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup/linux -I/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup/unix -I/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -I /build/sra-sdk-2.9.3+dfsg/ngs/ngs-c++ -MD -o main.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup/main.cpp -D__mod_name__=tools/ngs-pileup -D__file_name__=main -D__file_ext__=cpp ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ g++ -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/ngs-pileup.2.9.3 -DNDEBUG -m64 ngs-pileup.o main.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -lncbi-ngs-c++ -lncbi-vdb -lngs-c++ -ltk-version -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ln -s ngs-pileup.2.9.3 ngs-pileup.2 ln -s ngs-pileup.2 ngs-pileup make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ngs-pileup' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-sql' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-sql' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/cg-load' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cg-load' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cg-load' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/cg-load' make[3]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools' make[3]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/read-filter-redact' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/read-filter-redact' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-config' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-config' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/align-info' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/align-info' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-validate' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-validate' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/kar' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/kar' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-copy' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-copy' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/qual-recalib-stat' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/qual-recalib-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/sra-sort' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/sra-sort' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/sra-pileup' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/sra-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/fuse' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/fuse' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/fastq-loader' Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/fastq-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/read-filter-redact' 2021-12-15T08:57:40 read-filter-redact.2.9.3 info: Success: redacted 1 spots out of 12 make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/read-filter-redact' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-config' Testing exit code vdb-config of vdb-config... This test is droped since the executable should not be run as root make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-config' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/align-info' Usage: align-info [options] Summary: Print database alignment information Parameters: db-path Path to the database Options: -a|--all print all information -r|--ref print refseq information [default] -b|--bam print bam header (if present) -Q|--qual print quality statistics (if present) -H|--headers print headers for output blocks -h|--help Output brief explanation for the program. -V|--version Display the version of the program then quit. -L|--log-level Logging level as number or enum string. One of (fatal|sys|int|err|warn|info|debug) or (0-6) Current/default is warn -v|--verbose Increase the verbosity of the program status messages. Use multiple times for more verbosity. Negates quiet. -q|--quiet Turn off all status messages for the program. Negated by verbose. --option-file Read more options and parameters from the file. -+|--debug Turn on debug output for module. All flags if not specified. /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/align-info : 2.9.3 ( 2.9.3-1 ) make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/align-info' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-validate' Starting vdb-validate tests... All vdb-validate tests succeed make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-validate' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/kar' Starting kar tests... Testing create mode... Testing create mode with existing archive... Testing force: -f create mode... Testing option variation --create ... Testing option variation --directory ... Testing option variation --force ... Testing md5: --md5 mode... Testing test mode... Testing option variation --test ... Testing longlist: -l mode... Testing extract mode... Testing extract mode --extract... could not locate old kar tool to run comparisons make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/kar' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-copy' [check-exit-code.py] test passed for [/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-copy] make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-copy' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/qual-recalib-stat' [check-exit-code.py] test passed for [/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/qual-recalib-stat] make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/qual-recalib-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/sra-sort' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/sra-sort' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/sra-pileup' WARNING[TEST1] help message is in 'STDOUT' [check-exit-code.py] test passed for [/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sra-pileup] make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/sra-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/fuse' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/fuse' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/fastq-loader' Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' /build/sra-sdk-2.9.3+dfsg/test/fastq-loader/Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/test/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/test/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/test/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o wb-test-fastq.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/test/fastq-loader/wb-test-fastq.cpp -D__mod_name__=test/fastq-loader -D__file_name__=wb-test-fastq -D__file_ext__=cpp ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ g++ -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/test-bin/wb-test-fastq -DNDEBUG -m64 wb-test-fastq.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -lktst -lfastqloader -lload -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' Running 99 test cases... *** No errors detected make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' /build/sra-sdk-2.9.3+dfsg/test/fastq-loader/Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/test/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/test/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/test/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o wb-test-fastq-parse.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/test/fastq-loader/wb-test-fastq-parse.cpp -D__mod_name__=test/fastq-loader -D__file_name__=wb-test-fastq-parse -D__file_ext__=cpp ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ g++ -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/test-bin/wb-test-fastq-parse -DNDEBUG -m64 wb-test-fastq-parse.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -lktst -lfastqloader -lload -lncbi-vdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' Running 13 test cases... *** No errors detected make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' /build/sra-sdk-2.9.3+dfsg/test/fastq-loader/Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' g++ -c -DNDEBUG -m64 -DLINUX -DUNIX -D_GNU_SOURCE -D_REENTRANT -D_FILE_OFFSET_BITS=64 -DPKGNAME=linux64 -D_ARCH_BITS=__SIZEOF_POINTER__*__CHAR_BIT__ -DLIBPREFIX=lib -DSHLIBEXT=so -I/build/sra-sdk-2.9.3+dfsg/interfaces/override -I/build/sra-sdk-2.9.3+dfsg/test/fastq-loader/linux -I/build/sra-sdk-2.9.3+dfsg/test/fastq-loader/unix -I/build/sra-sdk-2.9.3+dfsg/test/fastq-loader -I/usr/include/ncbi-vdb/ -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/usr/include/ncbi-vdb/ext -I/usr/include -I. -MD -o test-fastq-loader.o -O3 -Wno-variadic-macros -fno-strict-aliasing -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 -Wall /build/sra-sdk-2.9.3+dfsg/test/fastq-loader/test-fastq-loader.cpp -D__mod_name__=test/fastq-loader -D__file_name__=test-fastq-loader -D__file_ext__=cpp ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. +++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++ g++ -static-libstdc++ -static-libgcc -o /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/test-bin/test-fastq-loader -DNDEBUG -m64 test-fastq-loader.o -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/lib -L/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/ilib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -lkapp -lktst -lfastqloader -lload -lncbi-wvdb -Wl,-Bdynamic -ldl -lpthread -lxml2 -Wl,-Bdynamic -lm -lz -lbz2 -lsz -lmbedx509 -lmbedtls -lmbedcrypto ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' running 1.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 1.2 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 1.4 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.1.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.5 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.6 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.7 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.8.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 3.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.2 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.3 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.4 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.6 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 5.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 6.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 7.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 7.2 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 7.3 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 8.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 9.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 10.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 11.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 11.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 12.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 12.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 12.2 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 13.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 13.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 14.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 15.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 16.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 16.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. removed 'tmp.kfg' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/fastq-loader' make[3]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test' make[2]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' dh_auto_test --no-parallel make -j1 test VERBOSE=1 make[2]: Entering directory '/build/sra-sdk-2.9.3+dfsg' make[3]: Entering directory '/build/sra-sdk-2.9.3+dfsg/shared' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/shared' make[4]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/shared' make[3]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/shared' make[3]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/util' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/util' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/util' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/util' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/align-cache' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-cache' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-cache' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/align-cache' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/kar' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kar' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kar' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/kar' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/kqsh' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kqsh' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kqsh' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/kqsh' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-dump' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-dump' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-dump' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-dump' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-dump' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-dump' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-dump' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-pileup' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-pileup' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/bam-loader' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/bam-loader' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/bam-loader' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/bam-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fastq-loader' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fastq-loader' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/fastq-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/srapath' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/srapath' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/srapath' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/srapath' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-stat' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-stat' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-stat' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-copy' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-copy' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-copy' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/rd-filter-redact' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/rd-filter-redact' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/rd-filter-redact' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-config' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-config' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-config' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-config' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/align-info' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-info' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/align-info' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/align-info' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/qual-recalib-stat' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/qual-recalib-stat' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/qual-recalib-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/prefetch' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/prefetch' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/prefetch' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/prefetch' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-decrypt' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-decrypt' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-decrypt' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-validate' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-validate' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-validate' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-sort' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-sort' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-sort' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-sort' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/cache-mgr' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cache-mgr' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cache-mgr' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/cache-mgr' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vcf-loader' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vcf-loader' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vcf-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/copycat' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/copycat' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/copycat' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/copycat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fasterq-dump' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fasterq-dump' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/fasterq-dump' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-load' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-load' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/sra-load' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/sra-load' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/ccextract' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ccextract' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ccextract' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/ccextract' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/pacbio-load' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/pacbio-load' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/pacbio-load' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/fuse' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fuse' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/fuse' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/fuse' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-diff' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-diff' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-diff' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/kget' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kget' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/kget' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/kget' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ngs-pileup' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/ngs-pileup' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/ngs-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-sql' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/vdb-sql' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/vdb-sql' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/tools/cg-load' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cg-load' make[5]: Nothing to be done for '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/all-cmn'. make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/tools/cg-load' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools/cg-load' make[3]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/tools' make[3]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/read-filter-redact' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/read-filter-redact' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-config' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-config' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/align-info' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/align-info' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-validate' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-validate' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/kar' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/kar' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-copy' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-copy' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/qual-recalib-stat' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/qual-recalib-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/sra-sort' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/sra-sort' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/sra-pileup' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/sra-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/fuse' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/fuse' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/fastq-loader' Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' make[4]: Nothing to be done for 'std'. make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/fastq-loader' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/read-filter-redact' 2021-12-15T08:58:21 read-filter-redact.2.9.3 info: Success: redacted 1 spots out of 12 make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/read-filter-redact' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-config' Testing exit code vdb-config of vdb-config... This test is droped since the executable should not be run as root make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-config' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/align-info' Usage: align-info [options] Summary: Print database alignment information Parameters: db-path Path to the database Options: -a|--all print all information -r|--ref print refseq information [default] -b|--bam print bam header (if present) -Q|--qual print quality statistics (if present) -H|--headers print headers for output blocks -h|--help Output brief explanation for the program. -V|--version Display the version of the program then quit. -L|--log-level Logging level as number or enum string. One of (fatal|sys|int|err|warn|info|debug) or (0-6) Current/default is warn -v|--verbose Increase the verbosity of the program status messages. Use multiple times for more verbosity. Negates quiet. -q|--quiet Turn off all status messages for the program. Negated by verbose. --option-file Read more options and parameters from the file. -+|--debug Turn on debug output for module. All flags if not specified. /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/align-info : 2.9.3 ( 2.9.3-1 ) make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/align-info' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-validate' Starting vdb-validate tests... All vdb-validate tests succeed make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-validate' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/kar' Starting kar tests... Testing create mode... Testing create mode with existing archive... Testing force: -f create mode... Testing option variation --create ... Testing option variation --directory ... Testing option variation --force ... Testing md5: --md5 mode... Testing test mode... Testing option variation --test ... Testing longlist: -l mode... Testing extract mode... Testing extract mode --extract... could not locate old kar tool to run comparisons make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/kar' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-copy' [check-exit-code.py] test passed for [/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/vdb-copy] make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/vdb-copy' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/qual-recalib-stat' [check-exit-code.py] test passed for [/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/qual-recalib-stat] make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/qual-recalib-stat' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/sra-sort' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/sra-sort' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/sra-pileup' WARNING[TEST1] help message is in 'STDOUT' [check-exit-code.py] test passed for [/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/bin/sra-pileup] make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/sra-pileup' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/fuse' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/fuse' make[4]: Entering directory '/build/sra-sdk-2.9.3+dfsg/test/fastq-loader' Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' /build/sra-sdk-2.9.3+dfsg/test/fastq-loader/Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' Running 99 test cases... *** No errors detected make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' /build/sra-sdk-2.9.3+dfsg/test/fastq-loader/Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' Running 13 test cases... *** No errors detected make[5]: Entering directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' /build/sra-sdk-2.9.3+dfsg/test/fastq-loader/Makefile:114: warning: overriding recipe for target 'runtests' /build/sra-sdk-2.9.3+dfsg/build/Makefile.env:370: warning: ignoring old recipe for target 'runtests' make[5]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/sra-tools/linux/gcc/x86_64/rel/obj/test/fastq-loader' running 1.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 1.2 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 1.4 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.1.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.5 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.6 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.7 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 2.8.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 3.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.2 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.3 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.4 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 4.6 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 5.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 6.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 7.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 7.2 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 7.3 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 8.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 9.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 10.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 11.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 11.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 12.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 12.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 12.2 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 13.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 13.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 14.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 15.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 16.0 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. running 16.1 ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. removed 'tmp.kfg' make[4]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test/fastq-loader' make[3]: Leaving directory '/build/sra-sdk-2.9.3+dfsg/test' make[2]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' make[1]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' create-stamp debian/debhelper-build-stamp dh_testroot -O--no-parallel debian/rules override_dh_prep make[1]: Entering directory '/build/sra-sdk-2.9.3+dfsg' dh_prep -X debian/tmp make[1]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' dh_auto_install -O--no-parallel make -j1 install DESTDIR=/build/sra-sdk-2.9.3\+dfsg/debian/sra-toolkit AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/sra-sdk-2.9.3+dfsg' Checking make status of tools... make[2]: Entering directory '/build/sra-sdk-2.9.3+dfsg' Installing executables to /build/sra-sdk-2.9.3+dfsg/debian/tmp/usr/bin/... Installing abi-dump...done Installing abi-load...done Installing align-info...done Installing bam-load...done Installing cache-mgr...done Installing cg-load...done Installing copycat...done Installing fasterq-dump...done Installing fastq-dump...done Installing fastq-load...done Installing helicos-load...done Installing illumina-dump...done Installing illumina-load...done Installing kar...done Installing kdbmeta...done Installing kget...done Installing latf-load...done Installing prefetch...done Installing rcexplain...done Installing remote-fuser...done Installing sam-dump...done Installing sff-dump...done Installing sff-load...done Installing srapath...done Installing sra-pileup...done Installing sra-sort...done Installing sra-stat...done Installing srf-load...done Installing test-sra...done Installing vdb-config...done Installing vdb-copy...done Installing vdb-decrypt...done Installing vdb-dump...done Installing vdb-encrypt...done Installing vdb-lock...done Installing vdb-passwd...done Installing vdb-unlock...done Installing vdb-validate...done Installing sra-toolkit...not found Installing pacbio-load...done Installing magic file...done Installing configuration files to /build/sra-sdk-2.9.3+dfsg/debian/sra-toolkit/etc/ncbi Updating /build/sra-sdk-2.9.3+dfsg/debian/sra-toolkit/etc/profile.d/sra-tools.[c]sh /bin/sh: line 4: /build/sra-sdk-2.9.3+dfsg/debian/sra-toolkit/etc/profile.d/sra-tools.sh: No such file or directory /bin/sh: line 4: /build/sra-sdk-2.9.3+dfsg/debian/sra-toolkit/etc/profile.d/sra-tools.csh: No such file or directory make[2]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' make[1]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' debian/rules override_dh_install make[1]: Entering directory '/build/sra-sdk-2.9.3+dfsg' # upstream installs versioned *.a libs - we only want a single version for bin in debian/tmp/usr/bin/*[a-z] ; do \ mv debian/tmp/usr/bin/`readlink $bin` $bin ; \ mv debian/tmp/usr/bin/`readlink $bin` $bin ; \ done mv: cannot overwrite non-directory 'debian/tmp/usr/bin/magic' with directory 'debian/tmp/usr/bin/' mv: cannot overwrite non-directory 'debian/tmp/usr/bin/magic' with directory 'debian/tmp/usr/bin/' dh_install # remove susipcious file which is not executable and conflicts with package magic rm -f debian/*/usr/bin/magic # rename kget which conflicts with kget download manager (see #851219) mv debian/sra-toolkit/usr/bin/kget debian/sra-toolkit/usr/bin/vdb-get make[1]: Leaving directory '/build/sra-sdk-2.9.3+dfsg' dh_installdocs -O--no-parallel dh_installchangelogs -O--no-parallel dh_installinit -O--no-parallel dh_perl -O--no-parallel dh_link -O--no-parallel dh_strip_nondeterminism -O--no-parallel dh_compress -O--no-parallel dh_fixperms -O--no-parallel dh_missing -O--no-parallel dh_strip -O--no-parallel dh_makeshlibs -O--no-parallel dh_shlibdeps -O--no-parallel dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sra-toolkit/usr/bin/vdb-dump debian/sra-toolkit/usr/bin/vdb-encrypt debian/sra-toolkit/usr/bin/sra-stat debian/sra-toolkit/usr/bin/helicos-load debian/sra-toolkit/usr/bin/fastq-dump debian/sra-toolkit/usr/bin/fasterq-dump debian/sra-toolkit/usr/bin/sff-load debian/sra-toolkit/usr/bin/sra-pileup debian/sra-toolkit/usr/bin/abi-load debian/sra-toolkit/usr/bin/sra-sort debian/sra-toolkit/usr/bin/vdb-decrypt debian/sra-toolkit/usr/bin/vdb-copy debian/sra-toolkit/usr/bin/remote-fuser debian/sra-toolkit/usr/bin/test-sra debian/sra-toolkit/usr/bin/srapath debian/sra-toolkit/usr/bin/kdbmeta debian/sra-toolkit/usr/bin/vdb-validate debian/sra-toolkit/usr/bin/kar debian/sra-toolkit/usr/bin/illumina-dump debian/sra-toolkit/usr/bin/cg-load debian/sra-toolkit/usr/bin/latf-load debian/sra-toolkit/usr/bin/pacbio-load debian/sra-toolkit/usr/bin/fastq-load debian/sra-toolkit/usr/bin/vdb-passwd debian/sra-toolkit/usr/bin/copycat debian/sra-toolkit/usr/bin/sff-dump debian/sra-toolkit/usr/bin/prefetch debian/sra-toolkit/usr/bin/abi-dump debian/sra-toolkit/usr/bin/sam-dump debian/sra-toolkit/usr/bin/vdb-lock debian/sra-toolkit/usr/bin/rcexplain debian/sra-toolkit/usr/bin/bam-load debian/sra-toolkit/usr/bin/vdb-get debian/sra-toolkit/usr/bin/vdb-config debian/sra-toolkit/usr/bin/align-info debian/sra-toolkit/usr/bin/vdb-unlock debian/sra-toolkit/usr/bin/illumina-load debian/sra-toolkit/usr/bin/cache-mgr debian/sra-toolkit/usr/bin/srf-load were not linked against libsz.so.2 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sra-toolkit/usr/bin/vdb-dump debian/sra-toolkit/usr/bin/vdb-encrypt debian/sra-toolkit/usr/bin/sra-stat debian/sra-toolkit/usr/bin/helicos-load debian/sra-toolkit/usr/bin/fastq-dump debian/sra-toolkit/usr/bin/fasterq-dump debian/sra-toolkit/usr/bin/sff-load debian/sra-toolkit/usr/bin/sra-pileup debian/sra-toolkit/usr/bin/abi-load debian/sra-toolkit/usr/bin/sra-sort debian/sra-toolkit/usr/bin/vdb-decrypt debian/sra-toolkit/usr/bin/vdb-copy debian/sra-toolkit/usr/bin/remote-fuser debian/sra-toolkit/usr/bin/test-sra debian/sra-toolkit/usr/bin/srapath debian/sra-toolkit/usr/bin/kdbmeta debian/sra-toolkit/usr/bin/vdb-validate debian/sra-toolkit/usr/bin/kar debian/sra-toolkit/usr/bin/illumina-dump debian/sra-toolkit/usr/bin/cg-load debian/sra-toolkit/usr/bin/latf-load debian/sra-toolkit/usr/bin/pacbio-load debian/sra-toolkit/usr/bin/fastq-load debian/sra-toolkit/usr/bin/vdb-passwd debian/sra-toolkit/usr/bin/copycat debian/sra-toolkit/usr/bin/sff-dump debian/sra-toolkit/usr/bin/prefetch debian/sra-toolkit/usr/bin/abi-dump debian/sra-toolkit/usr/bin/sam-dump debian/sra-toolkit/usr/bin/vdb-lock debian/sra-toolkit/usr/bin/rcexplain debian/sra-toolkit/usr/bin/bam-load debian/sra-toolkit/usr/bin/vdb-get debian/sra-toolkit/usr/bin/vdb-config debian/sra-toolkit/usr/bin/align-info debian/sra-toolkit/usr/bin/vdb-unlock debian/sra-toolkit/usr/bin/illumina-load debian/sra-toolkit/usr/bin/cache-mgr debian/sra-toolkit/usr/bin/srf-load were not linked against libxml2.so.2 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sra-toolkit/usr/bin/remote-fuser was not linked against librt.so.1 (it uses none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sra-toolkit/usr/bin/vdb-dump debian/sra-toolkit/usr/bin/vdb-encrypt debian/sra-toolkit/usr/bin/sra-stat debian/sra-toolkit/usr/bin/helicos-load debian/sra-toolkit/usr/bin/fastq-dump debian/sra-toolkit/usr/bin/fasterq-dump debian/sra-toolkit/usr/bin/sff-load debian/sra-toolkit/usr/bin/sra-pileup debian/sra-toolkit/usr/bin/abi-load debian/sra-toolkit/usr/bin/sra-sort debian/sra-toolkit/usr/bin/vdb-decrypt debian/sra-toolkit/usr/bin/vdb-copy debian/sra-toolkit/usr/bin/remote-fuser debian/sra-toolkit/usr/bin/test-sra debian/sra-toolkit/usr/bin/srapath debian/sra-toolkit/usr/bin/kdbmeta debian/sra-toolkit/usr/bin/vdb-validate debian/sra-toolkit/usr/bin/kar debian/sra-toolkit/usr/bin/illumina-dump debian/sra-toolkit/usr/bin/cg-load debian/sra-toolkit/usr/bin/latf-load debian/sra-toolkit/usr/bin/pacbio-load debian/sra-toolkit/usr/bin/fastq-load debian/sra-toolkit/usr/bin/vdb-passwd debian/sra-toolkit/usr/bin/copycat debian/sra-toolkit/usr/bin/sff-dump debian/sra-toolkit/usr/bin/prefetch debian/sra-toolkit/usr/bin/abi-dump debian/sra-toolkit/usr/bin/sam-dump debian/sra-toolkit/usr/bin/vdb-lock debian/sra-toolkit/usr/bin/rcexplain debian/sra-toolkit/usr/bin/bam-load debian/sra-toolkit/usr/bin/vdb-get debian/sra-toolkit/usr/bin/vdb-config debian/sra-toolkit/usr/bin/align-info debian/sra-toolkit/usr/bin/vdb-unlock debian/sra-toolkit/usr/bin/illumina-load debian/sra-toolkit/usr/bin/cache-mgr debian/sra-toolkit/usr/bin/srf-load were not linked against libmbedtls.so.12 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sra-toolkit/usr/bin/vdb-dump debian/sra-toolkit/usr/bin/vdb-encrypt debian/sra-toolkit/usr/bin/sra-stat debian/sra-toolkit/usr/bin/helicos-load debian/sra-toolkit/usr/bin/fastq-dump debian/sra-toolkit/usr/bin/fasterq-dump debian/sra-toolkit/usr/bin/sff-load debian/sra-toolkit/usr/bin/sra-pileup debian/sra-toolkit/usr/bin/abi-load debian/sra-toolkit/usr/bin/sra-sort debian/sra-toolkit/usr/bin/vdb-decrypt debian/sra-toolkit/usr/bin/vdb-copy debian/sra-toolkit/usr/bin/remote-fuser debian/sra-toolkit/usr/bin/test-sra debian/sra-toolkit/usr/bin/srapath debian/sra-toolkit/usr/bin/kdbmeta debian/sra-toolkit/usr/bin/vdb-validate debian/sra-toolkit/usr/bin/kar debian/sra-toolkit/usr/bin/illumina-dump debian/sra-toolkit/usr/bin/cg-load debian/sra-toolkit/usr/bin/latf-load debian/sra-toolkit/usr/bin/pacbio-load debian/sra-toolkit/usr/bin/fastq-load debian/sra-toolkit/usr/bin/vdb-passwd debian/sra-toolkit/usr/bin/copycat debian/sra-toolkit/usr/bin/sff-dump debian/sra-toolkit/usr/bin/prefetch debian/sra-toolkit/usr/bin/abi-dump debian/sra-toolkit/usr/bin/sam-dump debian/sra-toolkit/usr/bin/vdb-lock debian/sra-toolkit/usr/bin/rcexplain debian/sra-toolkit/usr/bin/bam-load debian/sra-toolkit/usr/bin/vdb-get debian/sra-toolkit/usr/bin/vdb-config debian/sra-toolkit/usr/bin/align-info debian/sra-toolkit/usr/bin/vdb-unlock debian/sra-toolkit/usr/bin/illumina-load debian/sra-toolkit/usr/bin/cache-mgr debian/sra-toolkit/usr/bin/srf-load were not linked against libmbedcrypto.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sra-toolkit/usr/bin/vdb-dump debian/sra-toolkit/usr/bin/vdb-encrypt debian/sra-toolkit/usr/bin/sra-stat debian/sra-toolkit/usr/bin/helicos-load debian/sra-toolkit/usr/bin/fastq-dump debian/sra-toolkit/usr/bin/fasterq-dump debian/sra-toolkit/usr/bin/sff-load debian/sra-toolkit/usr/bin/sra-pileup debian/sra-toolkit/usr/bin/abi-load debian/sra-toolkit/usr/bin/sra-sort debian/sra-toolkit/usr/bin/vdb-decrypt debian/sra-toolkit/usr/bin/vdb-copy debian/sra-toolkit/usr/bin/remote-fuser debian/sra-toolkit/usr/bin/test-sra debian/sra-toolkit/usr/bin/srapath debian/sra-toolkit/usr/bin/kdbmeta debian/sra-toolkit/usr/bin/vdb-validate debian/sra-toolkit/usr/bin/kar debian/sra-toolkit/usr/bin/illumina-dump debian/sra-toolkit/usr/bin/cg-load debian/sra-toolkit/usr/bin/latf-load debian/sra-toolkit/usr/bin/pacbio-load debian/sra-toolkit/usr/bin/fastq-load debian/sra-toolkit/usr/bin/vdb-passwd debian/sra-toolkit/usr/bin/copycat debian/sra-toolkit/usr/bin/sff-dump debian/sra-toolkit/usr/bin/prefetch debian/sra-toolkit/usr/bin/abi-dump debian/sra-toolkit/usr/bin/sam-dump debian/sra-toolkit/usr/bin/vdb-lock debian/sra-toolkit/usr/bin/rcexplain debian/sra-toolkit/usr/bin/bam-load debian/sra-toolkit/usr/bin/vdb-get debian/sra-toolkit/usr/bin/vdb-config debian/sra-toolkit/usr/bin/align-info debian/sra-toolkit/usr/bin/vdb-unlock debian/sra-toolkit/usr/bin/illumina-load debian/sra-toolkit/usr/bin/cache-mgr debian/sra-toolkit/usr/bin/srf-load were not linked against libmbedx509.so.0 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sra-toolkit/usr/bin/pacbio-load was not linked against libhdf5_serial.so.103 (it uses none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sra-toolkit/usr/bin/vdb-dump debian/sra-toolkit/usr/bin/vdb-encrypt debian/sra-toolkit/usr/bin/sra-stat debian/sra-toolkit/usr/bin/helicos-load debian/sra-toolkit/usr/bin/fastq-dump debian/sra-toolkit/usr/bin/fasterq-dump debian/sra-toolkit/usr/bin/sff-load debian/sra-toolkit/usr/bin/sra-pileup debian/sra-toolkit/usr/bin/abi-load debian/sra-toolkit/usr/bin/sra-sort debian/sra-toolkit/usr/bin/vdb-decrypt debian/sra-toolkit/usr/bin/vdb-copy debian/sra-toolkit/usr/bin/remote-fuser debian/sra-toolkit/usr/bin/test-sra debian/sra-toolkit/usr/bin/srapath debian/sra-toolkit/usr/bin/kdbmeta debian/sra-toolkit/usr/bin/vdb-validate debian/sra-toolkit/usr/bin/kar debian/sra-toolkit/usr/bin/illumina-dump debian/sra-toolkit/usr/bin/cg-load debian/sra-toolkit/usr/bin/latf-load debian/sra-toolkit/usr/bin/pacbio-load debian/sra-toolkit/usr/bin/fastq-load debian/sra-toolkit/usr/bin/vdb-passwd debian/sra-toolkit/usr/bin/copycat debian/sra-toolkit/usr/bin/sff-dump debian/sra-toolkit/usr/bin/prefetch debian/sra-toolkit/usr/bin/abi-dump debian/sra-toolkit/usr/bin/sam-dump debian/sra-toolkit/usr/bin/vdb-lock debian/sra-toolkit/usr/bin/rcexplain debian/sra-toolkit/usr/bin/bam-load debian/sra-toolkit/usr/bin/vdb-get debian/sra-toolkit/usr/bin/vdb-config debian/sra-toolkit/usr/bin/align-info debian/sra-toolkit/usr/bin/vdb-unlock debian/sra-toolkit/usr/bin/illumina-load debian/sra-toolkit/usr/bin/cache-mgr debian/sra-toolkit/usr/bin/srf-load were not linked against libbz2.so.1.0 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/sra-toolkit/usr/bin/vdb-dump debian/sra-toolkit/usr/bin/vdb-encrypt debian/sra-toolkit/usr/bin/sra-stat debian/sra-toolkit/usr/bin/helicos-load debian/sra-toolkit/usr/bin/fastq-dump debian/sra-toolkit/usr/bin/fasterq-dump debian/sra-toolkit/usr/bin/sff-load debian/sra-toolkit/usr/bin/sra-pileup debian/sra-toolkit/usr/bin/abi-load debian/sra-toolkit/usr/bin/sra-sort debian/sra-toolkit/usr/bin/vdb-decrypt debian/sra-toolkit/usr/bin/vdb-copy debian/sra-toolkit/usr/bin/remote-fuser debian/sra-toolkit/usr/bin/test-sra debian/sra-toolkit/usr/bin/srapath debian/sra-toolkit/usr/bin/kdbmeta debian/sra-toolkit/usr/bin/vdb-validate debian/sra-toolkit/usr/bin/kar debian/sra-toolkit/usr/bin/illumina-dump debian/sra-toolkit/usr/bin/cg-load debian/sra-toolkit/usr/bin/latf-load debian/sra-toolkit/usr/bin/pacbio-load debian/sra-toolkit/usr/bin/fastq-load debian/sra-toolkit/usr/bin/vdb-passwd debian/sra-toolkit/usr/bin/copycat debian/sra-toolkit/usr/bin/sff-dump debian/sra-toolkit/usr/bin/prefetch debian/sra-toolkit/usr/bin/abi-dump debian/sra-toolkit/usr/bin/sam-dump debian/sra-toolkit/usr/bin/vdb-lock debian/sra-toolkit/usr/bin/rcexplain debian/sra-toolkit/usr/bin/bam-load debian/sra-toolkit/usr/bin/vdb-get debian/sra-toolkit/usr/bin/vdb-config debian/sra-toolkit/usr/bin/align-info debian/sra-toolkit/usr/bin/vdb-unlock debian/sra-toolkit/usr/bin/illumina-load debian/sra-toolkit/usr/bin/cache-mgr debian/sra-toolkit/usr/bin/srf-load were not linked against libdl.so.2 (they use none of the library's symbols) dh_installdeb -O--no-parallel dh_gencontrol -O--no-parallel dh_md5sums -O--no-parallel dh_builddeb -O--no-parallel dpkg-deb: building package 'sra-toolkit-dbgsym' in '../sra-toolkit-dbgsym_2.9.3+dfsg-1_amd64.deb'. dpkg-deb: building package 'sra-toolkit' in '../sra-toolkit_2.9.3+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../sra-sdk_2.9.3+dfsg-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/2458349/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/2458349/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/2458349 and its subdirectories I: Current time: Wed Dec 15 22:59:01 +14 2021 I: pbuilder-time-stamp: 1639558741