I: pbuilder: network access will be disabled during build
I: Current time: Thu May 18 13:06:08 +14 2023
I: pbuilder-time-stamp: 1684364768
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
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 [plink_1.07+dfsg-4.dsc]
I: copying [./plink_1.07+dfsg.orig.tar.xz]
I: copying [./plink_1.07+dfsg-4.debian.tar.xz]
I: Extracting source
gpgv: Signature made Mon Nov 1 05:36:45 2021 +14
gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1
gpgv: issuer "nilesh@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./plink_1.07+dfsg-4.dsc: no acceptable signature found
dpkg-source: info: extracting plink in plink-1.07+dfsg
dpkg-source: info: unpacking plink_1.07+dfsg.orig.tar.xz
dpkg-source: info: unpacking plink_1.07+dfsg-4.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying 30_endiandetection.patch
dpkg-source: info: applying gcc-4.7.patch
dpkg-source: info: applying Fix_spelling_error.patch
dpkg-source: info: applying gcc11.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/5174/tmp/hooks/D01_modify_environment starting
debug: Running on cbxi4b.
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
'/bin/sh' -> '/bin/bash'
lrwxrwxrwx 1 root root 9 May 18 13:07 /bin/sh -> /bin/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/5174/tmp/hooks/D01_modify_environment finished
I: user script /srv/workspace/pbuilder/5174/tmp/hooks/D02_print_environment starting
I: set
BASH=/bin/sh
BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath
BASH_ALIASES=()
BASH_ARGC=()
BASH_ARGV=()
BASH_CMDS=()
BASH_LINENO=([0]="12" [1]="0")
BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:.
BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment")
BASH_VERSINFO=([0]="5" [1]="2" [2]="15" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf")
BASH_VERSION='5.2.15(1)-release'
BUILDDIR=/build
BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other'
BUILDUSERNAME=pbuilder2
BUILD_ARCH=armhf
DEBIAN_FRONTEND=noninteractive
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 '
DIRSTACK=()
DISTRIBUTION=bookworm
EUID=0
FUNCNAME=([0]="Echo" [1]="main")
GROUPS=()
HOME=/root
HOSTNAME=i-capture-the-hostname
HOSTTYPE=arm
HOST_ARCH=armhf
IFS='
'
INVOCATION_ID=31b11c70ab354dddb809f00307d03bd1
LANG=C
LANGUAGE=it_CH:it
LC_ALL=C
MACHTYPE=arm-unknown-linux-gnueabihf
MAIL=/var/mail/root
OPTERR=1
OPTIND=1
OSTYPE=linux-gnueabihf
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=5174
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/r-b-build.EUbNH3Zg/pbuilderrc_XD8Z --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.EUbNH3Zg/b2 --logfile b2/build.log --extrapackages usrmerge plink_1.07+dfsg-4.dsc'
SUDO_GID=116
SUDO_UID=112
SUDO_USER=jenkins
TERM=unknown
TZ=/usr/share/zoneinfo/Etc/GMT-14
UID=0
USER=root
_='I: set'
http_proxy=http://10.0.0.15:3142/
I: uname -a
Linux i-capture-the-hostname 5.10.0-23-armmp #1 SMP Debian 5.10.179-1 (2023-05-12) armv7l GNU/Linux
I: ls -l /bin
total 5072
-rwxr-xr-x 1 root root 838488 Apr 24 11:24 bash
-rwxr-xr-x 3 root root 67144 Sep 19 2022 bunzip2
-rwxr-xr-x 3 root root 67144 Sep 19 2022 bzcat
lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff
-rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff
lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep
-rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe
lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep
-rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep
-rwxr-xr-x 3 root root 67144 Sep 19 2022 bzip2
-rwxr-xr-x 1 root root 67112 Sep 19 2022 bzip2recover
lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore
-rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore
-rwxr-xr-x 1 root root 67632 Sep 21 2022 cat
-rwxr-xr-x 1 root root 67676 Sep 21 2022 chgrp
-rwxr-xr-x 1 root root 67644 Sep 21 2022 chmod
-rwxr-xr-x 1 root root 67684 Sep 21 2022 chown
-rwxr-xr-x 1 root root 133532 Sep 21 2022 cp
-rwxr-xr-x 1 root root 132868 Jan 6 03:20 dash
-rwxr-xr-x 1 root root 133220 Sep 21 2022 date
-rwxr-xr-x 1 root root 67732 Sep 21 2022 dd
-rwxr-xr-x 1 root root 68104 Sep 21 2022 df
-rwxr-xr-x 1 root root 133632 Sep 21 2022 dir
-rwxr-xr-x 1 root root 59128 Mar 23 23:02 dmesg
lrwxrwxrwx 1 root root 8 Dec 20 03:33 dnsdomainname -> hostname
lrwxrwxrwx 1 root root 8 Dec 20 03:33 domainname -> hostname
-rwxr-xr-x 1 root root 67560 Sep 21 2022 echo
-rwxr-xr-x 1 root root 41 Jan 25 04:43 egrep
-rwxr-xr-x 1 root root 67548 Sep 21 2022 false
-rwxr-xr-x 1 root root 41 Jan 25 04:43 fgrep
-rwxr-xr-x 1 root root 55748 Mar 23 23:02 findmnt
-rwsr-xr-x 1 root root 26208 Mar 23 22:15 fusermount
-rwxr-xr-x 1 root root 128608 Jan 25 04:43 grep
-rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip
-rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe
-rwxr-xr-x 1 root root 64220 Apr 10 2022 gzip
-rwxr-xr-x 1 root root 67032 Dec 20 03:33 hostname
-rwxr-xr-x 1 root root 67720 Sep 21 2022 ln
-rwxr-xr-x 1 root root 35132 Mar 23 23:51 login
-rwxr-xr-x 1 root root 133632 Sep 21 2022 ls
-rwxr-xr-x 1 root root 136808 Mar 23 23:02 lsblk
-rwxr-xr-x 1 root root 67800 Sep 21 2022 mkdir
-rwxr-xr-x 1 root root 67764 Sep 21 2022 mknod
-rwxr-xr-x 1 root root 67596 Sep 21 2022 mktemp
-rwxr-xr-x 1 root root 38504 Mar 23 23:02 more
-rwsr-xr-x 1 root root 38496 Mar 23 23:02 mount
-rwxr-xr-x 1 root root 9824 Mar 23 23:02 mountpoint
-rwxr-xr-x 1 root root 133532 Sep 21 2022 mv
lrwxrwxrwx 1 root root 8 Dec 20 03:33 nisdomainname -> hostname
lrwxrwxrwx 1 root root 14 Apr 3 20:25 pidof -> /sbin/killall5
-rwxr-xr-x 1 root root 67608 Sep 21 2022 pwd
lrwxrwxrwx 1 root root 4 Apr 24 11:24 rbash -> bash
-rwxr-xr-x 1 root root 67600 Sep 21 2022 readlink
-rwxr-xr-x 1 root root 67672 Sep 21 2022 rm
-rwxr-xr-x 1 root root 67600 Sep 21 2022 rmdir
-rwxr-xr-x 1 root root 67400 Nov 3 2022 run-parts
-rwxr-xr-x 1 root root 133372 Jan 6 09:55 sed
lrwxrwxrwx 1 root root 9 May 18 13:07 sh -> /bin/bash
-rwxr-xr-x 1 root root 67584 Sep 21 2022 sleep
-rwxr-xr-x 1 root root 67644 Sep 21 2022 stty
-rwsr-xr-x 1 root root 50800 Mar 23 23:02 su
-rwxr-xr-x 1 root root 67584 Sep 21 2022 sync
-rwxr-xr-x 1 root root 336764 Apr 7 04:25 tar
-rwxr-xr-x 1 root root 67144 Nov 3 2022 tempfile
-rwxr-xr-x 1 root root 133224 Sep 21 2022 touch
-rwxr-xr-x 1 root root 67548 Sep 21 2022 true
-rwxr-xr-x 1 root root 9768 Mar 23 22:15 ulockmgr_server
-rwsr-xr-x 1 root root 22108 Mar 23 23:02 umount
-rwxr-xr-x 1 root root 67572 Sep 21 2022 uname
-rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress
-rwxr-xr-x 1 root root 133632 Sep 21 2022 vdir
-rwxr-xr-x 1 root root 42608 Mar 23 23:02 wdctl
lrwxrwxrwx 1 root root 8 Dec 20 03:33 ypdomainname -> hostname
-rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat
-rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp
-rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff
-rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep
-rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep
-rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce
-rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep
-rwxr-xr-x 1 root root 2206 Apr 10 2022 zless
-rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore
-rwxr-xr-x 1 root root 4577 Apr 10 2022 znew
I: user script /srv/workspace/pbuilder/5174/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: armhf
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
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-compat (= 13), zlib1g-dev
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19329 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-compat (= 13); however:
Package debhelper-compat is not installed.
pbuilder-satisfydepends-dummy depends on zlib1g-dev; however:
Package zlib1g-dev is not installed.
Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
Building tag database...
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
The following NEW packages will be installed:
autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a}
The following packages are RECOMMENDED but will NOT be installed:
curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget
0 packages upgraded, 31 newly installed, 0 to remove and 0 not upgraded.
Need to get 18.9 MB of archives. After unpacking 68.9 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB]
Get: 2 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB]
Get: 3 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB]
Get: 4 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB]
Get: 5 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB]
Get: 6 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get: 7 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB]
Get: 8 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB]
Get: 9 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB]
Get: 10 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB]
Get: 11 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB]
Get: 12 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB]
Get: 13 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get: 14 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get: 15 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB]
Get: 16 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB]
Get: 17 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB]
Get: 18 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB]
Get: 19 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get: 20 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B]
Get: 21 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB]
Get: 22 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B]
Get: 23 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB]
Get: 24 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB]
Get: 25 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB]
Get: 26 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.2 [591 kB]
Get: 27 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB]
Get: 28 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 29 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get: 30 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB]
Get: 31 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB]
Fetched 18.9 MB in 6s (2977 kB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package sensible-utils.
(Reading database ...
(Reading database ... 5%
(Reading database ... 10%
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(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 19329 files and directories currently installed.)
Preparing to unpack .../00-sensible-utils_0.0.17+nmu1_all.deb ...
Unpacking sensible-utils (0.0.17+nmu1) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../01-libmagic-mgc_1%3a5.44-3_armhf.deb ...
Unpacking libmagic-mgc (1:5.44-3) ...
Selecting previously unselected package libmagic1:armhf.
Preparing to unpack .../02-libmagic1_1%3a5.44-3_armhf.deb ...
Unpacking libmagic1:armhf (1:5.44-3) ...
Selecting previously unselected package file.
Preparing to unpack .../03-file_1%3a5.44-3_armhf.deb ...
Unpacking file (1:5.44-3) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../04-gettext-base_0.21-12_armhf.deb ...
Unpacking gettext-base (0.21-12) ...
Selecting previously unselected package libuchardet0:armhf.
Preparing to unpack .../05-libuchardet0_0.0.7-1_armhf.deb ...
Unpacking libuchardet0:armhf (0.0.7-1) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../06-groff-base_1.22.4-10_armhf.deb ...
Unpacking groff-base (1.22.4-10) ...
Selecting previously unselected package bsdextrautils.
Preparing to unpack .../07-bsdextrautils_2.38.1-5+b1_armhf.deb ...
Unpacking bsdextrautils (2.38.1-5+b1) ...
Selecting previously unselected package libpipeline1:armhf.
Preparing to unpack .../08-libpipeline1_1.5.7-1_armhf.deb ...
Unpacking libpipeline1:armhf (1.5.7-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../09-man-db_2.11.2-2_armhf.deb ...
Unpacking man-db (2.11.2-2) ...
Selecting previously unselected package m4.
Preparing to unpack .../10-m4_1.4.19-3_armhf.deb ...
Unpacking m4 (1.4.19-3) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../11-autoconf_2.71-3_all.deb ...
Unpacking autoconf (2.71-3) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ...
Unpacking autotools-dev (20220109.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ...
Unpacking automake (1:1.16.5-1.3) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../14-autopoint_0.21-12_all.deb ...
Unpacking autopoint (0.21-12) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../15-libdebhelper-perl_13.11.4_all.deb ...
Unpacking libdebhelper-perl (13.11.4) ...
Selecting previously unselected package libtool.
Preparing to unpack .../16-libtool_2.4.7-5_all.deb ...
Unpacking libtool (2.4.7-5) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../17-dh-autoreconf_20_all.deb ...
Unpacking dh-autoreconf (20) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ...
Unpacking libarchive-zip-perl (1.68-1) ...
Selecting previously unselected package libsub-override-perl.
Preparing to unpack .../19-libsub-override-perl_0.09-4_all.deb ...
Unpacking libsub-override-perl (0.09-4) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../21-dh-strip-nondeterminism_1.13.1-1_all.deb ...
Unpacking dh-strip-nondeterminism (1.13.1-1) ...
Selecting previously unselected package libelf1:armhf.
Preparing to unpack .../22-libelf1_0.188-2.1_armhf.deb ...
Unpacking libelf1:armhf (0.188-2.1) ...
Selecting previously unselected package dwz.
Preparing to unpack .../23-dwz_0.15-1_armhf.deb ...
Unpacking dwz (0.15-1) ...
Selecting previously unselected package libicu72:armhf.
Preparing to unpack .../24-libicu72_72.1-3_armhf.deb ...
Unpacking libicu72:armhf (72.1-3) ...
Selecting previously unselected package libxml2:armhf.
Preparing to unpack .../25-libxml2_2.9.14+dfsg-1.2_armhf.deb ...
Unpacking libxml2:armhf (2.9.14+dfsg-1.2) ...
Selecting previously unselected package gettext.
Preparing to unpack .../26-gettext_0.21-12_armhf.deb ...
Unpacking gettext (0.21-12) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../27-intltool-debian_0.35.0+20060710.6_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.6) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../28-po-debconf_1.0.21+nmu1_all.deb ...
Unpacking po-debconf (1.0.21+nmu1) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../29-debhelper_13.11.4_all.deb ...
Unpacking debhelper (13.11.4) ...
Selecting previously unselected package zlib1g-dev:armhf.
Preparing to unpack .../30-zlib1g-dev_1%3a1.2.13.dfsg-1_armhf.deb ...
Unpacking zlib1g-dev:armhf (1:1.2.13.dfsg-1) ...
Setting up libpipeline1:armhf (1.5.7-1) ...
Setting up libicu72:armhf (72.1-3) ...
Setting up bsdextrautils (2.38.1-5+b1) ...
Setting up libmagic-mgc (1:5.44-3) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libdebhelper-perl (13.11.4) ...
Setting up libmagic1:armhf (1:5.44-3) ...
Setting up gettext-base (0.21-12) ...
Setting up m4 (1.4.19-3) ...
Setting up file (1:5.44-3) ...
Setting up autotools-dev (20220109.1) ...
Setting up autopoint (0.21-12) ...
Setting up autoconf (2.71-3) ...
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update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
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usrmerge is already the newest version (35).
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
I: Building the package
I: user script /srv/workspace/pbuilder/5174/tmp/hooks/A99_set_merged_usr starting
Re-configuring usrmerge...
removed '/etc/unsupported-skip-usrmerge-conversion'
The system has been successfully converted.
I: user script /srv/workspace/pbuilder/5174/tmp/hooks/A99_set_merged_usr finished
hostname: Name or service not known
I: Running cd /build/plink-1.07+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 > ../plink_1.07+dfsg-4_source.changes
dpkg-buildpackage: info: source package plink
dpkg-buildpackage: info: source version 1.07+dfsg-4
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Nilesh Patra <nilesh@debian.org>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/plink-1.07+dfsg'
dh_auto_clean
make -j4 clean
make[2]: Entering directory '/build/plink-1.07+dfsg'
rm -f *.o *~
make[2]: Leaving directory '/build/plink-1.07+dfsg'
rm -f plink
make[1]: Leaving directory '/build/plink-1.07+dfsg'
dh_clean
debian/rules binary
dh binary
dh_update_autotools_config
dh_autoreconf
dh_auto_configure
debian/rules override_dh_auto_build
make[1]: Entering directory '/build/plink-1.07+dfsg'
dh_auto_build -- CXXFLAGS='-Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3' FORCE_DYNAMIC=1
make -j4 "INSTALL=install --strip-program=true" "CXXFLAGS=-Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3" FORCE_DYNAMIC=1
make[2]: Entering directory '/build/plink-1.07+dfsg'
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c plink.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c options.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c input.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c binput.cpp
In file included from options.cpp:16:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from binput.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from input.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
binput.cpp: In member function 'void Plink::readBinData()':
binput.cpp:126:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
126 | for (int i=0; i<locus.size(); i++)
| ~^~~~~~~~~~~~~
binput.cpp:157:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
157 | for (int j=0; j<ordered.size(); j++)
| ~^~~~~~~~~~~~~~~
binput.cpp:176:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
176 | for (int j=0; j<ordered.size(); j++)
| ~^~~~~~~~~~~~~~~
binput.cpp:186:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
186 | for (int j=0; j<ordered.size(); j++)
| ~^~~~~~~~~~~~~~~
binput.cpp:261:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
261 | while (s<locus.size()) // for all SNPs
| ~^~~~~~~~~~~~~
binput.cpp:339:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
339 | while (s<locus.size()) // for all SNPs
| ~^~~~~~~~~~~~~
binput.cpp:351:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
351 | while (c<7 && s<locus.size())
| ~^~~~~~~~~~~~~
binput.cpp:398:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
398 | for(int l=0; l < locus.size(); l++)
| ~~^~~~~~~~~~~~~~
input.cpp: In member function 'void Plink::readData()':
input.cpp:516:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
516 | if ( i == include.size() )
| ~~^~~~~~~~~~~~~~~~~
input.cpp:521:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
521 | if ( i > include.size())
| ~~^~~~~~~~~~~~~~~~
input.cpp:545:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
545 | if ( gn != 2 * include.size() )
| ~~~^~~~~~~~~~~~~~~~~~~~~
input.cpp:579:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
579 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
In file included from plink.cpp:28:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
input.cpp:595:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
595 | for (int i=0; i<ambiguous.size(); i++)
| ~^~~~~~~~~~~~~~~~~
input.cpp:611:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
611 | for (int i=0;i<sample.size();i++)
| ~^~~~~~~~~~~~~~
input.cpp:631:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
631 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp: In member function 'void Plink::readSet()':
input.cpp:695:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
695 | for (int i=0; i<snpset.size();i++)
| ~^~~~~~~~~~~~~~
input.cpp: In member function 'bool Plink::readClusterFile(bool)':
input.cpp:787:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
787 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:817:25: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
817 | if (tokens.size() < 2+par::mult_clst)
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
input.cpp:821:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
821 | for (int i0=0; i0<tokens.size(); i0++)
| ~~^~~~~~~~~~~~~~
input.cpp: In member function 'bool Plink::readPhenoFile()':
input.cpp:897:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
897 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:927:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
927 | for ( int i=2; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:961:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
961 | else if ( ccount != tokens.size() )
| ~~~~~~~^~~~~~~~~~~~~~~~
input.cpp:965:25: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
965 | if (tokens.size() < 2+par::mult_pheno)
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
input.cpp:1037:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1037 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:1043:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1043 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:1064:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1064 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp: In member function 'void Plink::makePhenotype()':
input.cpp:1208:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1208 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp: In member function 'bool Plink::readCovariateFile()':
input.cpp:1232:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1232 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:1256:25: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1256 | if (tokens.size() < 2+par::mult_covar)
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
input.cpp:1261:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1261 | for (int i0=0; i0<tokens.size(); i0++)
| ~~^~~~~~~~~~~~~~
input.cpp: In member function 'bool Plink::readCovListFile()':
input.cpp:1335:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1335 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:1374:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1374 | else if (tokens.size() != par::clist_number + 2 )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
input.cpp:1519:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1519 | for (int c=0; c<covlist.size(); c++)
| ~^~~~~~~~~~~~~~~
input.cpp:1538:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1538 | for (int c=0; c<covlist.size(); c++)
| ~^~~~~~~~~~~~~~~
In file included from plink.cpp:35:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
input.cpp: In member function 'bool Plink::readMultiplePhenoFile()':
input.cpp:1572:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1572 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:1599:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1599 | else if (tokens.size() != par::plist_number + 2 )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
input.cpp:1602:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1602 | for (int i=0;i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:1745:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1745 | for (int c=0; c<phelist.size(); c++)
| ~^~~~~~~~~~~~~~~
input.cpp:1764:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1764 | for (int c=0; c<phelist.size(); c++)
| ~^~~~~~~~~~~~~~~
input.cpp: In member function 'void Plink::readSegmentFile(std::ifstream&)':
input.cpp:1792:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1792 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp: In member function 'void Plink::readMapFile(std::string, std::vector<bool>&, std::vector<int>&, int&)':
input.cpp:2116:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2116 | for (int i=0; i<include.size(); i++)
| ~^~~~~~~~~~~~~~~
input.cpp:2172:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2172 | for (int j=0; j<ordered.size(); j++)
| ~^~~~~~~~~~~~~~~
input.cpp:2200:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2200 | for (int j=0; j<ordered.size(); j++)
| ~^~~~~~~~~~~~~~~
input.cpp:2210:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2210 | for (int j=0; j<ordered.size(); j++)
| ~^~~~~~~~~~~~~~~
input.cpp:2215:57: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2215 | if ( (!par::plink) && (!par::run_chr==0) && nl_actual < locus.size() )
| ~~~~~~~~~~^~~~~~~~~~~~~~
input.cpp:2225:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2225 | for(int l=0; l < locus.size(); l++)
| ~~^~~~~~~~~~~~~~
input.cpp: In member function 'void Plink::readFamFile(std::string)':
input.cpp:2389:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2389 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:2397:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2397 | for (int i=0;i<sample.size();i++)
| ~^~~~~~~~~~~~~~
input.cpp:2419:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2419 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
input.cpp:2453:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2453 | for (int i=0; i<ambiguous.size(); i++)
| ~^~~~~~~~~~~~~~~~~
input.cpp: In member function 'void Plink::readHomozygSegmentFile(std::ifstream&)':
input.cpp:2471:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2471 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
In file included from plink.cpp:40:
idhelp.h: In member function 'void IDGroup::display()':
idhelp.h:196:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
196 | for (int k=0; k<values.size(); k++)
| ~^~~~~~~~~~~~~~
input.cpp: In member function 'void Plink::updateAlleles()':
input.cpp:2732:12: warning: unused variable 'success' [-Wunused-variable]
2732 | bool success = false;
| ^~~~~~~
plink.cpp: In function 'int main(int, char**)':
plink.cpp:763:26: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
763 | par::make_founders &&
| ~~~~~~~~~~~~~~~~~~~^~
764 | !par::built_families)
| ~~~~~~~~~~~~~~~~~~~~
plink.cpp:2106:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2106 | for (int i=0;i<chrs.size();i++)
| ~^~~~~~~~~~~~
plink.cpp: In member function 'void Plink::cleanUp()':
plink.cpp:2359:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2359 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
plink.cpp:2362:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2362 | for (int l=0; l<locus.size(); l++)
| ~^~~~~~~~~~~~~
plink.cpp:2366:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<CSNP*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2366 | for (int l=0; l<SNP.size(); l++)
| ~^~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c tinput.cpp
In file included from /usr/include/c++/12/algorithm:61,
from binput.cpp:19:
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _OutputIterator = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2615 | __move_merge(_InputIterator __first1, _InputIterator __last1,
| ^~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = Locus*; _OutputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2682 | __merge_sort_with_buffer(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__chunk_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2693:34:
/usr/include/c++/12/bits/stl_algo.h:2672:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2672 | std::__insertion_sort(__first, __first + __chunk_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2675 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _RandomAccessIterator2 = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2697:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = Locus*; _RandomAccessIterator2 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2700:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function '_RandomAccessIterator std::_V2::__rotate(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]':
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1281 | __rotate(_RandomAccessIterator __first,
| ^~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2451 | __merge_without_buffer(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2491:15:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2492:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2492 | std::__merge_without_buffer(__first, __first_cut, __new_middle,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2493 | __len11, __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2494:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2494 | std::__merge_without_buffer(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2495 | __len1 - __len11, __len2 - __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2739 | __inplace_stable_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In file included from tinput.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/bits/stl_algo.h:61:
/usr/include/c++/12/bits/stl_tempbuf.h: In constructor 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, size_type) [with _ForwardIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >; _Tp = Locus]':
/usr/include/c++/12/bits/stl_tempbuf.h:258:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
258 | _Temporary_buffer<_ForwardIterator, _Tp>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
tinput.cpp: In member function 'void Plink::readTransposedData()':
tinput.cpp:161:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
161 | for (int i=0; i<include.size(); i++)
| ~^~~~~~~~~~~~~~~
tinput.cpp:218:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
218 | for (int j=0; j<ordered.size(); j++)
| ~^~~~~~~~~~~~~~~
tinput.cpp:246:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
246 | for (int j=0; j<ordered.size(); j++)
| ~^~~~~~~~~~~~~~~
tinput.cpp:256:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
256 | for (int j=0; j<ordered.size(); j++)
| ~^~~~~~~~~~~~~~~
tinput.cpp:261:57: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
261 | if ( (!par::plink) && (!par::run_chr==0) && nl_actual < locus.size() )
| ~~~~~~~~~~^~~~~~~~~~~~~~
tinput.cpp:271:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
271 | for(int l=0; l < locus.size(); l++)
| ~~^~~~~~~~~~~~~~
tinput.cpp:309:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
309 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
tinput.cpp:591:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
591 | if ( c > sample.size())
| ~~^~~~~~~~~~~~~~~
tinput.cpp:603:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
603 | if ( gn != 2 * sample.size() )
| ~~~^~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]':
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2352 | __rotate_adaptive(_BidirectionalIterator1 __first,
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]' at /usr/include/c++/12/bits/stl_algo.h:2383:20:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_adaptive(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Pointer, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2390 | __merge_adaptive(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2435:37: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2435 | = std::__rotate_adaptive(__first_cut, __middle, __second_cut,
| ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2436 | __len1 - __len11, __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2437 | __buffer_size);
| ~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2438:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2438 | std::__merge_adaptive(__first, __first_cut, __new_middle, __len11,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2439 | __len22, __buffer, __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2440:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2440 | std::__merge_adaptive(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2441 | __len1 - __len11,
| ~~~~~~~~~~~~~~~~~
2442 | __len2 - __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
2443 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__stable_sort_adaptive(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2709 | __stable_sort_adaptive(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2718:38: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2718 | std::__stable_sort_adaptive(__first, __middle, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2719 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2720:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2720 | std::__stable_sort_adaptive(__middle, __last, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
2721 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2725:40: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2725 | std::__merge_sort_with_buffer(__first, __middle, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2726:40: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2726 | std::__merge_sort_with_buffer(__middle, __last, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2729:28: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2729 | std::__merge_adaptive(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2730 | _Distance(__middle - __first),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2731 | _Distance(__last - __middle),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2732 | __buffer, __buffer_size,
| ~~~~~~~~~~~~~~~~~~~~~~~~
2733 | __comp);
| ~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from binput.cpp:22:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Locus&}; _Tp = Locus; _Alloc = std::allocator<Locus>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Locus>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Locus; _Alloc = std::allocator<Locus>]',
inlined from 'void Plink::readBinData()' at binput.cpp:97:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::readBinData()' at binput.cpp:123:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::readBinData()' at binput.cpp:137:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/algorithm:61,
from input.cpp:18:
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _OutputIterator = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2615 | __move_merge(_InputIterator __first1, _InputIterator __last1,
| ^~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = Locus*; _OutputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In file included from /usr/include/c++/12/algorithm:61,
from tinput.cpp:19:
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _OutputIterator = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2615 | __move_merge(_InputIterator __first1, _InputIterator __last1,
| ^~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = Locus*; _OutputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2682 | __merge_sort_with_buffer(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__chunk_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2693:34:
/usr/include/c++/12/bits/stl_algo.h:2672:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2672 | std::__insertion_sort(__first, __first + __chunk_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2675 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _RandomAccessIterator2 = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2697:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = Locus*; _RandomAccessIterator2 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2700:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function '_RandomAccessIterator std::_V2::__rotate(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]':
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1281 | __rotate(_RandomAccessIterator __first,
| ^~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2682 | __merge_sort_with_buffer(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__chunk_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2693:34:
/usr/include/c++/12/bits/stl_algo.h:2672:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2672 | std::__insertion_sort(__first, __first + __chunk_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2675 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _RandomAccessIterator2 = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2697:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = Locus*; _RandomAccessIterator2 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2700:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function '_RandomAccessIterator std::_V2::__rotate(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]':
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1281 | __rotate(_RandomAccessIterator __first,
| ^~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2451 | __merge_without_buffer(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2491:15:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2492:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2492 | std::__merge_without_buffer(__first, __first_cut, __new_middle,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2493 | __len11, __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2494:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2494 | std::__merge_without_buffer(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2495 | __len1 - __len11, __len2 - __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2739 | __inplace_stable_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2451 | __merge_without_buffer(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2491:15:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2492:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2492 | std::__merge_without_buffer(__first, __first_cut, __new_middle,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2493 | __len11, __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2494:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2494 | std::__merge_without_buffer(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2495 | __len1 - __len11, __len2 - __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2739 | __inplace_stable_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c genome.cpp
In file included from /usr/include/c++/12/bits/stl_algo.h:61:
/usr/include/c++/12/bits/stl_tempbuf.h: In constructor 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, size_type) [with _ForwardIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >; _Tp = Locus]':
/usr/include/c++/12/bits/stl_tempbuf.h:258:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
258 | _Temporary_buffer<_ForwardIterator, _Tp>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]':
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2352 | __rotate_adaptive(_BidirectionalIterator1 __first,
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]' at /usr/include/c++/12/bits/stl_algo.h:2383:20:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_adaptive(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Pointer, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2390 | __merge_adaptive(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2435:37: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2435 | = std::__rotate_adaptive(__first_cut, __middle, __second_cut,
| ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2436 | __len1 - __len11, __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2437 | __buffer_size);
| ~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2438:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2438 | std::__merge_adaptive(__first, __first_cut, __new_middle, __len11,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2439 | __len22, __buffer, __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2440:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2440 | std::__merge_adaptive(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2441 | __len1 - __len11,
| ~~~~~~~~~~~~~~~~~
2442 | __len2 - __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
2443 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__stable_sort_adaptive(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2709 | __stable_sort_adaptive(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2718:38: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2718 | std::__stable_sort_adaptive(__first, __middle, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2719 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2720:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2720 | std::__stable_sort_adaptive(__middle, __last, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
2721 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2725:40: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2725 | std::__merge_sort_with_buffer(__first, __middle, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2726:40: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2726 | std::__merge_sort_with_buffer(__middle, __last, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2729:28: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2729 | std::__merge_adaptive(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2730 | _Distance(__middle - __first),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2731 | _Distance(__last - __middle),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2732 | __buffer, __buffer_size,
| ~~~~~~~~~~~~~~~~~~~~~~~~
2733 | __comp);
| ~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from tinput.cpp:23:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Locus&}; _Tp = Locus; _Alloc = std::allocator<Locus>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Locus>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from input.cpp:23:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Segment&}; _Tp = Segment; _Alloc = std::allocator<Segment>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Segment>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Segment; _Alloc = std::allocator<Segment>]',
inlined from 'void Plink::readSegmentFileMinimal(std::ifstream&)' at input.cpp:1927:25:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Segment*, std::vector<Segment> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from genome.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
genome.cpp: In member function 'void Plink::calcStratifiedAlleleFreqs()':
genome.cpp:99:15: warning: unused variable 'geno_nm' [-Wunused-variable]
99 | int geno_nm = 0;
| ^~~~~~~
genome.cpp:81:14: warning: unused variable 'tothet' [-Wunused-variable]
81 | double tothet = 0;
| ^~~~~~
genome.cpp: In member function 'void Plink::calcFst()':
genome.cpp:391:14: warning: unused variable 'ht' [-Wunused-variable]
391 | double ht = 2 * locus[l]->freq * ( 1 - locus[l]->freq );
| ^~
genome.cpp: In member function 'Z Plink::calcGenomeIBD(Individual*, Individual*, Z)':
genome.cpp:843:10: warning: unused variable 'e10' [-Wunused-variable]
843 | double e10 = E10*S;
| ^~~
genome.cpp:844:10: warning: unused variable 'e20' [-Wunused-variable]
844 | double e20 = E20*S;
| ^~~
genome.cpp:848:10: warning: unused variable 'e21' [-Wunused-variable]
848 | double e21 = E21*S;
| ^~~
genome.cpp: In member function 'void Plink::displayGenomeWideInfo()':
genome.cpp:1067:30: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
1067 | if ( (!par::silent ) && c==c2 || c==np)
| ~~~~~~~~~~~~~~~~^~~~~~~~
genome.cpp: In member function 'void Plink::pruneLD()':
genome.cpp:1227:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1227 | for (int i=0;i<chrs.size();i++)
| ~^~~~~~~~~~~~
genome.cpp:1189:7: warning: unused variable 'win_end' [-Wunused-variable]
1189 | int win_end = win_start + par::prune_ld_win;
| ^~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Locus; _Alloc = std::allocator<Locus>]',
inlined from 'void Plink::readTransposedData()' at tinput.cpp:132:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::readTransposedData()' at tinput.cpp:157:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::readTransposedData()' at tinput.cpp:179:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Segment; _Alloc = std::allocator<Segment>]',
inlined from 'void Plink::readHomozygSegmentFile(std::ifstream&)' at input.cpp:2539:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Segment*, std::vector<Segment> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Segment; _Alloc = std::allocator<Segment>]',
inlined from 'void Plink::readSegmentFile(std::ifstream&)' at input.cpp:1862:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Segment*, std::vector<Segment> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/12/bits/stl_algo.h:61:
/usr/include/c++/12/bits/stl_tempbuf.h: In constructor 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, size_type) [with _ForwardIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >; _Tp = Locus]':
/usr/include/c++/12/bits/stl_tempbuf.h:258:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
258 | _Temporary_buffer<_ForwardIterator, _Tp>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c helper.cpp
In file included from helper.h:24,
from helper.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
helper.cpp: In function 'std::string display(std::vector<std::__cxx11::basic_string<char> >&)':
helper.cpp:58:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
58 | for (int i=0; i<s.size(); i++)
| ~^~~~~~~~~
helper.cpp: In function 'std::string displayLine(std::vector<std::__cxx11::basic_string<char> >&)':
helper.cpp:66:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
66 | for (int i=0; i<s.size(); i++)
| ~^~~~~~~~~
helper.cpp: In function 'void display(matrix_t&)':
helper.cpp:76:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
76 | for (int i=0; i< m.size(); i++)
| ~^~~~~~~~~~
helper.cpp:79:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
79 | for (int j=0; j<m[i].size(); j++)
| ~^~~~~~~~~~~~
helper.cpp: In function 'void display(vector_t&)':
helper.cpp:90:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
90 | for (int i=0; i< m.size(); i++)
| ~^~~~~~~~~~
helper.cpp: In function 'void display(std::vector<int>&)':
helper.cpp:100:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
100 | for (int i=0; i< m.size(); i++)
| ~^~~~~~~~~~
helper.cpp: In member function 'void CArgs::fromPriorLog(std::string)':
helper.cpp:193:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
193 | for (int t=0; t<tokens.size(); t++)
| ~^~~~~~~~~~~~~~
helper.cpp: In member function 'std::vector<std::__cxx11::basic_string<char> > CArgs::value(std::string, int)':
helper.cpp:267:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
267 | if ( (i+j) < a.size() )
| ~~~~~~^~~~~~~~~~
helper.cpp:277:16: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
277 | if (r.size() != c) error("Not enough arguments given for option: "+s+" ");
| ~~~~~~~~~^~~~
helper.cpp: In function 'std::vector<std::__cxx11::basic_string<char> > parse2str(std::string)':
helper.cpp:306:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} [-Wsign-compare]
306 | for (int i=0 ; i < s.length() ; i++)
| ~~^~~~~~~~~~~~
helper.cpp:307:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} [-Wsign-compare]
307 | if (s[i] == ',' || i == s.length()-1 )
| ~~^~~~~~~~~~~~~~~
helper.cpp:309:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} [-Wsign-compare]
309 | if (i == s.length()-1) t += s[i];
| ~~^~~~~~~~~~~~~~~
helper.cpp: In function 'std::vector<int> parse2int(std::string)':
helper.cpp:323:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
323 | for (int i=0; i<v.size(); i++)
| ~^~~~~~~~~
helper.cpp: In member function 'void CArgs::check_unused_options(Plink&)':
helper.cpp:461:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
461 | for (int i=1; i<original.size(); i++)
| ~^~~~~~~~~~~~~~~~
helper.cpp: In function 'void summaryBasics(Plink&)':
helper.cpp:595:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
595 | for (int i=0; i<P.sample.size(); i++)
| ~^~~~~~~~~~~~~~~~
helper.cpp:611:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
611 | for (int i=0; i<P.sample.size(); i++)
| ~^~~~~~~~~~~~~~~~
helper.cpp: In function 'double genotypingRate(Plink&, int)':
helper.cpp:659:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
659 | for (int i=0;i<P.sample.size();i++)
| ~^~~~~~~~~~~~~~~~
helper.cpp:664:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
664 | for (int i=0;i<P.sample.size();i++)
| ~^~~~~~~~~~~~~~~~
helper.cpp: In function 'std::vector<std::__cxx11::basic_string<char> > listPossibleHaplotypes(Plink&, std::vector<int>)':
helper.cpp:709:10: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
709 | while(h<nh)
| ~^~~
helper.cpp:729:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
729 | for (int h=0; h<hap.size(); h++)
| ~^~~~~~~~~~~
helper.cpp: In function 'void removeMissingPhenotypes(Plink&)':
helper.cpp:775:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
775 | for (int i=0; i<P.sample.size(); i++)
| ~^~~~~~~~~~~~~~~~
helper.cpp: In function 'void geno2matrix(std::vector<int>&, matrix_t&, boolmatrix_t&, bool)':
helper.cpp:795:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
795 | for (int s = 0 ; s < snps.size() ; s++)
| ~~^~~~~~~~~~~~~
helper.cpp: In function 'std::string chromosomeName(int)':
helper.cpp:952:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
952 | if ( c < 0 || c >= par::chr_code.size() )
| ~~^~~~~~~~~~~~~~~~~~~~~~~
helper.cpp: In function 'int getMarkerChromosome(Plink&, std::string)':
helper.cpp:959:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
959 | for (int i=0;i<P.locus.size();i++)
| ~^~~~~~~~~~~~~~~
helper.cpp: In function 'int getMarkerNumber(Plink&, std::string)':
helper.cpp:966:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
966 | for (int i=0;i<P.locus.size();i++)
| ~^~~~~~~~~~~~~~~
helper.cpp: In function 'bool seeChromosome(Plink&, int)':
helper.cpp:973:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
973 | for (int l=0;l<P.locus.size();l++)
| ~^~~~~~~~~~~~~~~
helper.cpp: In function 'std::vector<int> getChromosomeMarkerRange(Plink&, int)':
helper.cpp:989:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
989 | for (int i=0;i<P.locus.size();i++)
| ~^~~~~~~~~~~~~~~
helper.cpp: In function 'std::vector<int> getChromosomeRange(Plink&)':
helper.cpp:1040:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1040 | for (int i=0;i<P.locus.size();i++)
| ~^~~~~~~~~~~~~~~
helper.cpp: In function 'void checkFileExists(std::vector<std::__cxx11::basic_string<char> >)':
helper.cpp:1172:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1172 | for (int k=0; k<f.size(); k++)
| ~^~~~~~~~~
helper.cpp: In member function 'void Plink::prettyPrintLengths()':
helper.cpp:1264:35: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1264 | if (sample[i]->fid.length() > par::pp_maxfid)
| ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~
helper.cpp:1267:35: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1267 | if (sample[i]->iid.length() > par::pp_maxiid)
| ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~
helper.cpp:1273:33: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1273 | if (locus[l]->name.length() > par::pp_maxsnp)
| ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~
helper.cpp: In function 'std::vector<bool> vif_prune(std::vector<std::vector<double> >, double, std::vector<int>&)':
helper.cpp:1389:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1389 | for (int i=0; i<u.size(); i++)
| ~^~~~~~~~~
helper.cpp:1391:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1391 | for (int j=0; j<u[i].size(); j++)
| ~^~~~~~~~~~~~
helper.cpp: In member function 'int Plink::deleteSNPs(std::vector<bool>&)':
helper.cpp:2204:12: warning: unused variable 'i' [-Wunused-variable]
2204 | int i = 0;
| ^
helper.cpp: In member function 'void Plink::filterOnCovariate()':
helper.cpp:2455:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2455 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
helper.cpp:2462:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2462 | for (int j=0; j<filters.size(); j++)
| ~^~~~~~~~~~~~~~~
helper.cpp:2491:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2491 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
helper.cpp: In member function 'void Plink::filterOnCase()':
helper.cpp:2510:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2510 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
helper.cpp: In member function 'void Plink::filterOnControl()':
helper.cpp:2530:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2530 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
helper.cpp: In member function 'void Plink::filterOnMale()':
helper.cpp:2549:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2549 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
helper.cpp: In member function 'void Plink::filterOnFemale()':
helper.cpp:2568:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2568 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
helper.cpp: In member function 'void Plink::filterOnFounder()':
helper.cpp:2587:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2587 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
helper.cpp: In member function 'void Plink::filterOnNonFounder()':
helper.cpp:2606:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2606 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
helper.cpp: In member function 'void Plink::attribFilterSNP()':
helper.cpp:2638:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2638 | for (int i=0; i<vlist.size(); i++)
| ~^~~~~~~~~~~~~
helper.cpp:2671:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2671 | for (int j=1; j<tok.size(); j++)
| ~^~~~~~~~~~~
helper.cpp: In member function 'void Plink::attribFilterInd()':
helper.cpp:2722:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2722 | for (int i=0; i<vlist.size(); i++)
| ~^~~~~~~~~~~~~
helper.cpp:2756:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2756 | for (int j=1; j<tok.size(); j++)
| ~^~~~~~~~~~~
helper.cpp: In function 'void makePersonMap(Plink&, std::map<std::__cxx11::basic_string<char>, Individual*>&)':
helper.cpp:2935:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2935 | for (int i=0; i<P.sample.size(); i++)
| ~^~~~~~~~~~~~~~~~
helper.cpp: In function 'void smoother(Plink&, vector_t&, int, vector_t&, vector_t&, std::vector<int>&)':
helper.cpp:2959:21: warning: comparison of integer expressions of different signedness: 'std::vector<double>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
2959 | if ( input.size() != P.nl_all )
| ~~~~~~~~~~~~~^~~~~~~~~~~
helper.cpp: In function 'std::map<std::__cxx11::basic_string<char>, std::set<Range> > readRange(std::string)':
helper.cpp:3097:20: warning: unused variable 's' [-Wunused-variable]
3097 | set<Range> * s;
| ^
helper.cpp: In function 'void makeScaffold(Plink&)':
helper.cpp:3324:9: warning: unused variable 'last' [-Wunused-variable]
3324 | int last = -1;
| ^~~~
helper.cpp:3328:9: warning: unused variable 'thisChromosome' [-Wunused-variable]
3328 | int thisChromosome = P.locus[0]->chr;
| ^~~~~~~~~~~~~~
helper.cpp:3329:9: warning: unused variable 'nextChromosome' [-Wunused-variable]
3329 | int nextChromosome;
| ^~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'bool Plink::readMultiplePhenoFile()' at input.cpp:1636:31:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'bool Plink::readMultiplePhenoFile()' at input.cpp:1687:27:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'bool Plink::readMultiplePhenoFile()' at input.cpp:1747:31:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c stats.cpp
helper.cpp: In member function 'std::string CArgs::value(std::string)':
helper.cpp:218:35: warning: control reaches end of non-void function [-Wreturn-type]
218 | error("Missing an argument for "+s);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~
helper.cpp: In member function 'int CArgs::value_int(std::string)':
helper.cpp:231:35: warning: control reaches end of non-void function [-Wreturn-type]
231 | error("Missing an argument for "+s);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~
helper.cpp: In member function 'long unsigned int CArgs::value_lui(std::string)':
helper.cpp:243:35: warning: control reaches end of non-void function [-Wreturn-type]
243 | error("Missing an argument for "+s);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~
helper.cpp: In member function 'double CArgs::value_double(std::string)':
helper.cpp:255:35: warning: control reaches end of non-void function [-Wreturn-type]
255 | error("Missing an argument for "+s);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~
helper.cpp: In function 'int getInt(std::string, std::string)':
helper.cpp:378:58: warning: control reaches end of non-void function [-Wreturn-type]
378 | error("Not valid integer argument for : "+a+" [ "+s+" ]");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~
helper.cpp: In function 'long unsigned int getLongUnsignedInt(std::string, std::string)':
helper.cpp:391:58: warning: control reaches end of non-void function [-Wreturn-type]
391 | error("Not valid integer argument for : "+a+" [ "+s+" ]");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~
helper.cpp: In function 'double getDouble(std::string, std::string)':
helper.cpp:404:58: warning: control reaches end of non-void function [-Wreturn-type]
404 | error("Not valid numeric argument for : "+a+" [ "+s+" ]");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~
In file included from helper.h:24,
from stats.cpp:30:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
stats.cpp: In function 'void tqli(std::vector<double>&, std::vector<double>&, std::vector<std::vector<double> >&)':
stats.cpp:458:18: warning: unused variable 'k' [-Wunused-variable]
458 | int m,l,iter,i,k;
| ^
stats.cpp: In function 'bool svd(matrix_t&, vector_t&, matrix_t&)':
stats.cpp:813:16: warning: unused variable 'eps' [-Wunused-variable]
813 | const double eps = 1e-12;
| ^~~
stats.cpp:818:7: warning: unused variable 'r' [-Wunused-variable]
818 | int r = u.size();
| ^
stats.cpp: In function 'std::vector<std::vector<double> > msqrt(std::vector<std::vector<double> >&)':
stats.cpp:906:16: warning: unused variable 'eps' [-Wunused-variable]
906 | const double eps = 1e-12;
| ^~~
stats.cpp: In function 'int pca(matrix_t&, boolmatrix_t&, vector_t&, matrix_t&, matrix_t&, bool)':
stats.cpp:1477:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1477 | for (int c = 0 ; c < keep.size(); c++)
| ~~^~~~~~~~~~~~~
stats.cpp:1483:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1483 | for (int c = 0 ; c < keep.size(); c++)
| ~~^~~~~~~~~~~~~
stats.cpp:1515:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1515 | for (int c = 0 ; c < keep.size(); c++)
| ~~^~~~~~~~~~~~~
stats.cpp:1521:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1521 | for (int c = 0 ; c < keep.size(); c++)
| ~~^~~~~~~~~~~~~
stats.cpp: In function 'matrix_t vec2diag(vector_t&)':
stats.cpp:1531:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1531 | for (int i = 0; i < v.size(); i++)
| ~~^~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'bool Plink::readCovListFile()' at input.cpp:1407:31:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'bool Plink::readCovListFile()' at input.cpp:1461:27:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'bool Plink::readCovListFile()' at input.cpp:1521:31:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c filters.cpp
/usr/include/c++/12/bits/stl_algo.h: In function '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]':
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2352 | __rotate_adaptive(_BidirectionalIterator1 __first,
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]' at /usr/include/c++/12/bits/stl_algo.h:2383:20:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_adaptive(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Pointer, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2390 | __merge_adaptive(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2435:37: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2435 | = std::__rotate_adaptive(__first_cut, __middle, __second_cut,
| ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2436 | __len1 - __len11, __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2437 | __buffer_size);
| ~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2438:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2438 | std::__merge_adaptive(__first, __first_cut, __new_middle, __len11,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2439 | __len22, __buffer, __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2440:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2440 | std::__merge_adaptive(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2441 | __len1 - __len11,
| ~~~~~~~~~~~~~~~~~
2442 | __len2 - __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
2443 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__stable_sort_adaptive(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2709 | __stable_sort_adaptive(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2718:38: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2718 | std::__stable_sort_adaptive(__first, __middle, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2719 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2720:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2720 | std::__stable_sort_adaptive(__middle, __last, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
2721 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2725:40: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2725 | std::__merge_sort_with_buffer(__first, __middle, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2726:40: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2726 | std::__merge_sort_with_buffer(__middle, __last, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2729:28: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2729 | std::__merge_adaptive(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2730 | _Distance(__middle - __first),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2731 | _Distance(__last - __middle),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2732 | __buffer, __buffer_size,
| ~~~~~~~~~~~~~~~~~~~~~~~~
2733 | __comp);
| ~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Locus&}; _Tp = Locus; _Alloc = std::allocator<Locus>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Locus>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Locus; _Alloc = std::allocator<Locus>]',
inlined from 'void Plink::readMapFile(std::string, std::vector<bool>&, std::vector<int>&, int&)' at input.cpp:2084:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::readMapFile(std::string, std::vector<bool>&, std::vector<int>&, int&)' at input.cpp:2112:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::readMapFile(std::string, std::vector<bool>&, std::vector<int>&, int&)' at input.cpp:2134:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from filters.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
filters.cpp: In member function 'void Plink::filterSNPs()':
filters.cpp:95:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
95 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
filters.cpp:123:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
123 | for (int i=0;i<sample.size();i++)
| ~^~~~~~~~~~~~~~
filters.cpp:132:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
132 | for (int l=0; l<locus.size();l++)
| ~^~~~~~~~~~~~~
filters.cpp:155:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
155 | for (int i=0;i<sample.size();i++)
| ~^~~~~~~~~~~~~~
filters.cpp:163:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
163 | for (int l=0; l<locus.size();l++)
| ~^~~~~~~~~~~~~
filters.cpp:198:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
198 | for (int i=0;i<sample.size();i++)
| ~^~~~~~~~~~~~~~
filters.cpp:273:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
273 | for (int i=0; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
filters.cpp:249:14: warning: unused variable 'freq' [-Wunused-variable]
249 | double freq;
| ^~~~
filters.cpp:250:11: warning: unused variable 'nm' [-Wunused-variable]
250 | int nm;
| ^~
filters.cpp:591:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
591 | for (int i=0; i<hetlist.size(); i++)
| ~^~~~~~~~~~~~~~~
filters.cpp:611:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
611 | for (int i=0; i<no_founders_found_list.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
filters.cpp:739:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
739 | for ( int l = 0 ; l < locus.size() ; l++ )
| ~~^~~~~~~~~~~~~~
filters.cpp:762:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
762 | for ( int i = 0 ; i < sample.size() ; i++ )
| ~~^~~~~~~~~~~~~~~
filters.cpp:1078:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1078 | for (int l=0; l<locus.size();l++)
| ~^~~~~~~~~~~~~
filters.cpp:1091:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1091 | for (int l=0; l<locus.size();l++)
| ~^~~~~~~~~~~~~
filters.cpp:1143:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1143 | for (int l=0; l<locus.size(); l++)
| ~^~~~~~~~~~~~~
filters.cpp:1165:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1165 | for ( int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
filters.cpp:1257:7: warning: unused variable 'tmp' [-Wunused-variable]
1257 | int tmp = deleteSNPs(del);
| ^~~
filters.cpp: In member function 'void Plink::thinSNPs()':
filters.cpp:1277:7: warning: unused variable 'x' [-Wunused-variable]
1277 | int x = 0;
| ^
In file included from /usr/include/c++/12/vector:70,
from stats.h:19,
from stats.cpp:24:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'std::vector<std::vector<double> > svd_inverse(std::vector<std::vector<double> >&, bool&)' at stats.cpp:856:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'std::vector<std::vector<double> > svd_inverse(std::vector<std::vector<double> >&, bool&)' at stats.cpp:879:18:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
input.cpp: In member function 'void Plink::readData()':
input.cpp:91:20: warning: 'PED' may be used uninitialized [-Wmaybe-uninitialized]
91 | if ( feof(PED) )
| ~~~~^~~~~
input.cpp:60:10: note: 'PED' was declared here
60 | FILE * PED;
| ^~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'std::vector<std::vector<double> > msqrt(std::vector<std::vector<double> >&)' at stats.cpp:912:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'std::vector<std::vector<double> > msqrt(std::vector<std::vector<double> >&)' at stats.cpp:924:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Eigen::set(int)' at stats.h:38:15,
inlined from 'Eigen eigenvectors(std::vector<std::vector<double> >&)' at stats.cpp:521:8:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c locus.cpp
In file included from locus.cpp:16:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from helper.h:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c multi.cpp
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void sizeMatrix(matrix_t&, int, int)' at helper.cpp:1868:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from multi.cpp:16:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
multi.cpp: In member function 'std::vector<double> Plink::calcMultiPoint(std::vector<Z>&, Z, std::ofstream&)':
multi.cpp:295:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Z>::size_type' {aka 'unsigned int'} [-Wsign-compare]
295 | for (int i=0;i<left.size();i++)
| ~^~~~~~~~~~~~
multi.cpp:304:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Z>::size_type' {aka 'unsigned int'} [-Wsign-compare]
304 | for (int i=0;i<left.size();i++)
| ~^~~~~~~~~~~~
multi.cpp:357:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Z>::size_type' {aka 'unsigned int'} [-Wsign-compare]
357 | for (int i=0;i<right.size();i++)
| ~^~~~~~~~~~~~~
multi.cpp:372:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
372 | for (int i=0; i<pos.size()-1; i++)
| ~^~~~~~~~~~~~~
multi.cpp:154:8: warning: unused variable 'is0zero' [-Wunused-variable]
154 | bool is0zero = IBDg.z0 < EPS ? true : false;
| ^~~~~~~
multi.cpp:155:8: warning: unused variable 'is1zero' [-Wunused-variable]
155 | bool is1zero = IBDg.z1 < EPS ? true : false;
| ^~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c crandom.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c cluster.cpp
In file included from /usr/include/c++/12/vector:70,
from options.h:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'std::vector<double> Plink::calcMultiPoint(std::vector<Z>&, Z, std::ofstream&)' at multi.cpp:506:23:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'std::vector<double> Plink::calcMultiPoint(std::vector<Z>&, Z, std::ofstream&)' at multi.cpp:513:23:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void Plink::preCalcSinglePoint()' at multi.cpp:35:20:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void Plink::preCalcSinglePoint()' at multi.cpp:41:16:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::preCalcMultiPoint()' at multi.cpp:78:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::preCalcMultiPoint()' at multi.cpp:90:18:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::preCalcMultiPoint()' at multi.cpp:103:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void Plink::preCalcMultiPoint()' at multi.cpp:116:17:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void Plink::preCalcMultiPoint()' at multi.cpp:126:21:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void Plink::preCalcMultiPoint()' at multi.cpp:135:17:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void Plink::preCalcMultiPoint()' at multi.cpp:144:16:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c mds.cpp
In file included from helper.h:24,
from cluster.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
cluster.cpp: In member function 'void Plink::buildCluster()':
cluster.cpp:272:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
272 | for (int z=1; z<=qt.size(); z++)
| ~^~~~~~~~~~~
cluster.cpp:452:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
452 | for (int i=0;i<ids.size();i++)
| ~^~~~~~~~~~~
cluster.cpp:511:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
511 | for (int i=0;i<val.size();i++)
| ~^~~~~~~~~~~
cluster.cpp:492:15: warning: unused variable 'size' [-Wunused-variable]
492 | int size = peeps.size();
| ^~~~
cluster.cpp:626:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
626 | for ( int i = 4; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
cluster.cpp:648:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
648 | if ( col_length != tokens.size() )
| ~~~~~~~~~~~^~~~~~~~~~~~~~~~
cluster.cpp:651:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
651 | for (int i=0;i<tokens.size();i++)
| ~^~~~~~~~~~~~~~
cluster.cpp:784:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
784 | for (int i=0;i<mdist.size();i++)
| ~^~~~~~~~~~~~~
cluster.cpp:786:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
786 | for (int j=0;j<mdist.size();j++)
| ~^~~~~~~~~~~~~
cluster.cpp:919:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
919 | for (int k=0;k<min_dst[0].size();k++)
| ~^~~~~~~~~~~~~~~~~~
cluster.cpp:954:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
954 | for (int i=0; i<cl.size(); i++)
| ~^~~~~~~~~~
cluster.cpp:955:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
955 | for (int j=0; j<cl[i].size(); j++)
| ~^~~~~~~~~~~~~
cluster.cpp:975:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
975 | for (int i=0; i<cl.size()-1; i++)
| ~^~~~~~~~~~~~
cluster.cpp:976:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
976 | for (int j=i+1; j<cl.size(); j++)
| ~^~~~~~~~~~
cluster.cpp:990:55: warning: comparison of integer expressions of different signedness: 'std::vector<int>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
990 | (( cl[i].size()+cl[j].size()) <= par::max_cluster_size) )
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
cluster.cpp:1038:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1038 | for(int j=0;j<cl[jmin].size();j++)
| ~^~~~~~~~~~~~~~~~
cluster.cpp:1041:40: warning: comparison of integer expressions of different signedness: 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1041 | if (cl.size()==1 || cl.size()==par::max_cluster_N) done=true;
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
cluster.cpp:1049:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1049 | for (int i=0; i<cl.size(); i++)
| ~^~~~~~~~~~
cluster.cpp:1050:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1050 | for (int j=0; j<cl[i].size(); j++)
| ~^~~~~~~~~~~~~
cluster.cpp:1060:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1060 | for (int j1=0; j1<sol.size(); j1++)
| ~~^~~~~~~~~~~
cluster.cpp:1061:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1061 | for (int j2=0; j2<sol.size(); j2++)
| ~~^~~~~~~~~~~
cluster.cpp:1107:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1107 | for (int i=0; i<cl.size(); i++)
| ~^~~~~~~~~~
cluster.cpp:1110:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1110 | for (int j=0; j<cl[i].size(); j++)
| ~^~~~~~~~~~~~~
cluster.cpp:1133:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1133 | for (int j=0; j<sol.size(); j++)
| ~^~~~~~~~~~~
cluster.cpp:1163:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1163 | for (int j=0; j<sol.size(); j++)
| ~^~~~~~~~~~~
cluster.cpp:1169:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1169 | for (int i=0; i<sol[0].size(); i++)
| ~^~~~~~~~~~~~~~
cluster.cpp: In function 'double cldist(std::vector<std::vector<double> >&, std::vector<int>&, std::vector<int>&)':
cluster.cpp:1203:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1203 | for (int i=0; i<a.size(); i++)
| ~^~~~~~~~~
cluster.cpp:1204:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1204 | for (int j=0; j<b.size(); j++)
| ~^~~~~~~~~
cluster.cpp: In function 'double groupAvgLink(std::vector<std::vector<double> >&, std::vector<int>&, std::vector<int>&)':
cluster.cpp:1228:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1228 | for (int i=0; i<a.size(); i++)
| ~^~~~~~~~~
cluster.cpp:1229:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1229 | for (int j=0; j<b.size(); j++)
| ~^~~~~~~~~
cluster.cpp: In function 'bool homogeneous_clusters(Plink&, std::vector<int>&, std::vector<int>&)':
cluster.cpp:1254:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1254 | for (int i=0; i<a.size(); i++)
| ~^~~~~~~~~
cluster.cpp:1255:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1255 | for (int j=0; j<b.size(); j++)
| ~^~~~~~~~~
cluster.cpp: In function 'bool spec_clusters(Plink&, std::vector<int>&, std::vector<int>&)':
cluster.cpp:1272:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1272 | for (int i=0; i<a.size(); i++)
| ~^~~~~~~~~
cluster.cpp:1276:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1276 | for (int j=0; j<b.size(); j++)
| ~^~~~~~~~~
cluster.cpp: In function 'bool pairable_cluster(std::vector<std::vector<bool> >&, std::vector<int>&, std::vector<int>&)':
cluster.cpp:1290:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1290 | for (int i=0; i<a.size(); i++)
| ~^~~~~~~~~
cluster.cpp:1291:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1291 | for (int j=0; j<b.size(); j++)
| ~^~~~~~~~~
cluster.cpp: In member function 'void Plink::groupGenome()':
cluster.cpp:1643:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1643 | for ( int i = 4; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
cluster.cpp:1661:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1661 | if ( col_length != tokens.size() )
| ~~~~~~~~~~~^~~~~~~~~~~~~~~~
cluster.cpp:1664:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1664 | for (int i=0;i<tokens.size();i++)
| ~^~~~~~~~~~~~~~
In file included from mds.cpp:21:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
mds.cpp: In member function 'void Plink::generateMDS()':
mds.cpp:190:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
190 | for (int i1=0; i1<cl[c1].size(); i1++)
| ~~^~~~~~~~~~~~~~
mds.cpp:191:36: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
191 | for (int i2=0; i2<cl[c2].size(); i2++)
| ~~^~~~~~~~~~~~~~
mds.cpp:279:21: warning: comparison of integer expressions of different signedness: 'std::vector<int>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
279 | if ( elist.size() != par::cluster_mds_dim )
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
mds.cpp:242:8: warning: unused variable 'flag' [-Wunused-variable]
242 | bool flag = svd(D,eigenvalue,eigenvector);
| ^~~~
In file included from /usr/include/c++/12/set:60,
from plink.h:22,
from mds.cpp:20:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<double, int>}; _Key = double; _Val = std::pair<const double, int>; _KeyOfValue = std::_Select1st<std::pair<const double, int> >; _Compare = std::less<double>; _Alloc = std::allocator<std::pair<const double, int> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, int>, std::_Select1st<std::pair<const double, int> >, std::less<double>, std::allocator<std::pair<const double, int> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/bits/stl_algo.h:60,
from /usr/include/c++/12/algorithm:61,
from cluster.cpp:19:
/usr/include/c++/12/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Neighbour*, vector<Neighbour> >; _Distance = int; _Tp = Neighbour; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Neighbour*, std::vector<Neighbour> >' changed in GCC 7.1
224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Neighbour*, vector<Neighbour> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Neighbour*, std::vector<Neighbour> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Neighbour*, std::vector<Neighbour> >' changed in GCC 7.1
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c output.cpp
In file included from /usr/include/c++/12/map:61,
from plink.h:23:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<double, int>}; _Key = double; _Tp = int; _Compare = std::less<double>; _Alloc = std::allocator<std::pair<const double, int> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<double, int>; _Key = double; _Tp = int; _Compare = std::less<double>; _Alloc = std::allocator<std::pair<const double, int> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::generateMDS()' at mds.cpp:261:16:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<double, int>::const_iterator' {aka 'std::_Rb_tree<double, std::pair<const double, int>, std::_Select1st<std::pair<const double, int> >, std::less<double>, std::allocator<std::pair<const double, int> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Neighbour*, vector<Neighbour> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Neighbour*, std::vector<Neighbour> >' changed in GCC 7.1
1908 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Neighbour*, std::vector<Neighbour> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Neighbour*, std::vector<Neighbour> >' changed in GCC 7.1
1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from cluster.cpp:22:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c informative.cpp
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from output.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
output.cpp: In member function 'void Plink::displayGenomePV()':
output.cpp:84:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
84 | for (int i=0; i<original.size();i++)
| ~^~~~~~~~~~~~~~~~
output.cpp:86:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
86 | for (int j=0; j<original[i].size(); j++)
| ~^~~~~~~~~~~~~~~~~~~
output.cpp:89:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
89 | for (int k=0; k<maxr2.size(); k++)
| ~^~~~~~~~~~~~~
output.cpp: In member function 'void Plink::display_twolocus()':
output.cpp:402:28: warning: variable 'loc1' set but not used [-Wunused-but-set-variable]
402 | vector<Locus*>::iterator loc1 = locus.begin()+m1;
| ^~~~
output.cpp:403:28: warning: variable 'loc2' set but not used [-Wunused-but-set-variable]
403 | vector<Locus*>::iterator loc2 = locus.begin()+m2;
| ^~~~
output.cpp: In member function 'void Plink::extractExcludeSet(bool)':
output.cpp:520:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
520 | for (int s=0; s<setname.size(); s++)
| ~^~~~~~~~~~~~~~~
output.cpp:526:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
526 | for (int l=0; l<snpset[s].size(); l++)
| ~^~~~~~~~~~~~~~~~~
output.cpp:553:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
553 | for (int l=0; l<lst.size(); l++)
| ~^~~~~~~~~~~
output.cpp: In member function 'void Plink::keep2SetsForGenome()':
output.cpp:788:7: warning: unused variable 'n_removed' [-Wunused-variable]
788 | int n_removed = deleteIndividuals(del);
| ^~~~~~~~~
output.cpp: In member function 'void Plink::outputSetFile()':
output.cpp:2200:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2200 | for (int i=0; i<snpset.size();i++)
| ~^~~~~~~~~~~~~~
output.cpp:2322:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2322 | for (int j=0; j<inSet.size(); j++)
| ~^~~~~~~~~~~~~
output.cpp: In member function 'void Plink::setTable()':
output.cpp:2367:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2367 | for (int i=0; i < setname.size();i++)
| ~~^~~~~~~~~~~~~~~~
output.cpp:2380:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2380 | for (int i=0;i<setname.size();i++)
| ~^~~~~~~~~~~~~~~
output.cpp: In member function 'void Plink::writeSetFile()':
output.cpp:2409:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2409 | for (int j=0; j<snpset.size(); j++)
| ~^~~~~~~~~~~~~~
output.cpp:2412:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2412 | for (int l=0; l<snpset[j].size(); l++)
| ~^~~~~~~~~~~~~~~~~
In file included from informative.cpp:18:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
informative.cpp: In member function 'int Plink::readInformative()':
informative.cpp:80:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
80 | for ( int i = 4; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
informative.cpp:102:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
102 | if ( col_length != tokens.size() )
| ~~~~~~~~~~~^~~~~~~~~~~~~~~~
informative.cpp:105:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
105 | for (int i=0;i<tokens.size();i++)
| ~^~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:65:
In member function 'void std::_Bit_iterator_base::_M_incr(std::ptrdiff_t)',
inlined from 'std::_Bit_iterator::iterator& std::_Bit_iterator::operator+=(std::iterator<std::random_access_iterator_tag, bool>::difference_type)' at /usr/include/c++/12/bits/stl_bvector.h:328:14,
inlined from 'std::_Bit_iterator::iterator std::operator+(const _Bit_iterator::iterator&, iterator<random_access_iterator_tag, bool>::difference_type)' at /usr/include/c++/12/bits/stl_bvector.h:350:16,
inlined from 'std::_Bit_iterator::reference std::_Bit_iterator::operator[](std::iterator<std::random_access_iterator_tag, bool>::difference_type) const' at /usr/include/c++/12/bits/stl_bvector.h:343:24,
inlined from 'std::vector<bool, _Alloc>::reference std::vector<bool, _Alloc>::operator[](size_type) [with _Alloc = std::allocator<bool>]' at /usr/include/c++/12/bits/stl_bvector.h:1036:23,
inlined from 'std::vector<bool> vif_prune(std::vector<std::vector<double> >, double, std::vector<int>&)' at helper.cpp:1430:12:
/usr/include/c++/12/bits/stl_bvector.h:200:11: warning: 'maxI' may be used uninitialized [-Wmaybe-uninitialized]
200 | __n = __n % int(_S_word_bit);
| ~~~~^~~~~~~~~~~~~~~~~~~~~~~~
helper.cpp: In function 'std::vector<bool> vif_prune(std::vector<std::vector<double> >, double, std::vector<int>&)':
helper.cpp:1405:11: note: 'maxI' was declared here
1405 | int maxI;
| ^~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::buildCluster()' at cluster.cpp:259:14:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Neighbour*, vector<Neighbour> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Neighbour*, vector<Neighbour> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Plink::buildCluster()' at cluster.cpp:869:12:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Neighbour*, std::vector<Neighbour> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Neighbour*, vector<Neighbour> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Neighbour*, vector<Neighbour> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Neighbour*, vector<Neighbour> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Plink::buildCluster()' at cluster.cpp:869:12:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Neighbour*, std::vector<Neighbour> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Neighbour*, std::vector<Neighbour> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::buildCluster()' at cluster.cpp:870:28:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::buildCluster()' at cluster.cpp:1026:18:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from informative.cpp:17:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Z&}; _Tp = Z; _Alloc = std::allocator<Z>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Z>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Z; _Alloc = std::allocator<Z>]',
inlined from 'int Plink::calcInformative()' at informative.cpp:320:23:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Z*, std::vector<Z> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/12/set:60,
from plink.h:22:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<Pair, Z>}; _Key = Pair; _Val = std::pair<const Pair, Z>; _KeyOfValue = std::_Select1st<std::pair<const Pair, Z> >; _Compare = std::less<Pair>; _Alloc = std::allocator<std::pair<const Pair, Z> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<Pair, std::pair<const Pair, Z>, std::_Select1st<std::pair<const Pair, Z> >, std::less<Pair>, std::allocator<std::pair<const Pair, Z> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/map:61,
from plink.h:23:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<Pair, Z>}; _Key = Pair; _Tp = Z; _Compare = std::less<Pair>; _Alloc = std::allocator<std::pair<const Pair, Z> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<Pair, Z>; _Key = Pair; _Tp = Z; _Compare = std::less<Pair>; _Alloc = std::allocator<std::pair<const Pair, Z> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'int Plink::readInformative()' at informative.cpp:188:16:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<Pair, Z>::const_iterator' {aka 'std::_Rb_tree<Pair, std::pair<const Pair, Z>, std::_Select1st<std::pair<const Pair, Z> >, std::less<Pair>, std::allocator<std::pair<const Pair, Z> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Z; _Alloc = std::allocator<Z>]',
inlined from 'int Plink::readInformative()' at informative.cpp:222:26:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Z*, std::vector<Z> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c assoc.cpp
output.cpp: In member function 'void Plink::display_pairList()':
output.cpp:144:61: warning: 'i1' may be used uninitialized [-Wmaybe-uninitialized]
144 | << setw(par::pp_maxfid+par::pp_maxiid) << genotype(*this,i1,l) << " "
| ~~~~~~~~^~~~~~~~~~~~
output.cpp:116:7: note: 'i1' was declared here
116 | int i1, i2;
| ^~
output.cpp:145:61: warning: 'i2' may be used uninitialized [-Wmaybe-uninitialized]
145 | << setw(par::pp_maxfid+par::pp_maxiid) << genotype(*this,i2,l) << " "
| ~~~~~~~~^~~~~~~~~~~~
output.cpp:116:11: note: 'i2' was declared here
116 | int i1, i2;
| ^~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c epi.cpp
In file included from helper.h:24,
from assoc.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from epi.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from assoc.cpp:29:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
assoc.cpp: In member function 'void Plink::calcAssociationWithPermutation(Perm&)':
assoc.cpp:395:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
395 | for (int i=0; i<pS->profileSNPs.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~~~~~
epi.cpp: In member function 'void Plink::calcEpistasis()':
epi.cpp:146:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
146 | for (int e=0;e<snpset[0].size();e++)
| ~^~~~~~~~~~~~~~~~~
epi.cpp:154:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
154 | for (int e=0;e<snpset[1].size();e++)
| ~^~~~~~~~~~~~~~~~~
epi.cpp:161:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
161 | for (int e=0;e<snpset[0].size();e++)
| ~^~~~~~~~~~~~~~~~~
assoc.cpp:741:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
741 | for (int j=0; j<pS->selectedSNPs[l].size(); j++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~
assoc.cpp:744:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
744 | if ( j < pS->selectedSNPs[l].size() - 1 )
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
epi.cpp:438:26: warning: unused variable 'zero' [-Wunused-variable]
438 | double zero = 0;
| ^~~~
assoc.cpp:785:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<std::vector<double> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
785 | for (int i=0;i<pS->pv_set.size();i++)
| ~^~~~~~~~~~~~~~~~~~
assoc.cpp:788:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
788 | for (int j=0;j<pS->pv_set[i].size();j++)
| ~^~~~~~~~~~~~~~~~~~~~~
epi.cpp:701:11: warning: unused variable 'c' [-Wunused-variable]
701 | int c=0;
| ^
assoc.cpp: In member function 'std::vector<double> Plink::fullModelAssoc(bool, Perm&)':
assoc.cpp:1536:11: warning: unused variable 'best' [-Wunused-variable]
1536 | int best = 0 ;
| ^~~~
output.cpp: In member function 'void Plink::display_indivReport()':
output.cpp:69:32: warning: 'i1' may be used uninitialized [-Wmaybe-uninitialized]
69 | << setw(6) << genotype(*this,i1,l) << "\n";
| ~~~~~~~~^~~~~~~~~~~~
output.cpp:46:7: note: 'i1' was declared here
46 | int i1;
| ^~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c prephap.cpp
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from assoc.cpp:21:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::groupGenome()' at cluster.cpp:1613:17:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'std::vector<double> Plink::testMiss(Perm&, bool)' at assoc.cpp:2235:19:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'std::vector<double> Plink::testMiss(Perm&, bool)' at assoc.cpp:2237:19:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from prephap.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
assoc.cpp: In member function 'std::vector<double> Plink::testAssoc(int&, int&, std::vector<int>&, std::vector<int>&, std::vector<int>&, std::vector<double>&, std::vector<double>&, std::vector<double>&, std::vector<double>&, std::vector<double>&, Perm&, bool)':
assoc.cpp:1109:68: warning: 'pvalue' may be used uninitialized [-Wmaybe-uninitialized]
1109 | pS->profileTestSNPInformation( l, log(odds[l]) * -log10( pvalue ) );
| ~~~~~^~~~~~~~~~
assoc.cpp:1019:14: note: 'pvalue' was declared here
1019 | double pvalue;
| ^~~~~~
In file included from prephap.cpp:25:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
prephap.cpp: In member function 'void HaploPhase::readTagFile()':
prephap.cpp:226:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
226 | if (len != tokens.size() - offset )
| ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
prephap.cpp:283:44: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
283 | for ( int i = allele ; i < tokens.size() ; i++ )
| ~~^~~~~~~~~~~~~~~
prephap.cpp:412:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
412 | while ( index < tokens.size() )
| ~~~~~~^~~~~~~~~~~~~~~
prephap.cpp:416:41: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
416 | if ( tokens[index].size() != len )
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~
prephap.cpp:420:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
420 | if ( index == tokens.size() - 1 )
| ~~~~~~^~~~~~~~~~~~~~~~~~~~
prephap.cpp:470:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
470 | for (int s=0;s<S.size();s++)
| ~^~~~~~~~~
prephap.cpp: In member function 'void HaploPhase::makeSlidingWindow(std::string)':
prephap.cpp:533:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
533 | for (int i=0; i<tok.size(); i++)
| ~^~~~~~~~~~~
prephap.cpp:560:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
560 | for (int i=0; i<spec.size(); i++)
| ~^~~~~~~~~~~~
In file included from /usr/include/c++/12/iostream:39,
from assoc.cpp:14:
In member function 'std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(double) [with _CharT = char; _Traits = std::char_traits<char>]',
inlined from 'std::vector<double> Plink::fullModelAssoc(bool, Perm&)' at assoc.cpp:1590:26:
/usr/include/c++/12/ostream:221:25: warning: 'gen_chisq' may be used uninitialized [-Wmaybe-uninitialized]
221 | { return _M_insert(__f); }
| ~~~~~~~~~^~~~~
assoc.cpp: In member function 'std::vector<double> Plink::fullModelAssoc(bool, Perm&)':
assoc.cpp:1430:36: note: 'gen_chisq' was declared here
1430 | double dom_chisq, rec_chisq, gen_chisq;
| ^~~~~~~~~
In member function 'std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(double) [with _CharT = char; _Traits = std::char_traits<char>]',
inlined from 'std::vector<double> Plink::fullModelAssoc(bool, Perm&)' at assoc.cpp:1697:26:
/usr/include/c++/12/ostream:221:25: warning: 'rec_chisq' may be used uninitialized [-Wmaybe-uninitialized]
221 | { return _M_insert(__f); }
| ~~~~~~~~~^~~~~
assoc.cpp: In member function 'std::vector<double> Plink::fullModelAssoc(bool, Perm&)':
assoc.cpp:1430:25: note: 'rec_chisq' was declared here
1430 | double dom_chisq, rec_chisq, gen_chisq;
| ^~~~~~~~~
In member function 'std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(double) [with _CharT = char; _Traits = std::char_traits<char>]',
inlined from 'std::vector<double> Plink::fullModelAssoc(bool, Perm&)' at assoc.cpp:1672:26:
/usr/include/c++/12/ostream:221:25: warning: 'dom_chisq' may be used uninitialized [-Wmaybe-uninitialized]
221 | { return _M_insert(__f); }
| ~~~~~~~~~^~~~~
assoc.cpp: In member function 'std::vector<double> Plink::fullModelAssoc(bool, Perm&)':
assoc.cpp:1430:14: note: 'dom_chisq' was declared here
1430 | double dom_chisq, rec_chisq, gen_chisq;
| ^~~~~~~~~
In member function 'std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(double) [with _CharT = char; _Traits = std::char_traits<char>]',
inlined from 'std::vector<double> Plink::fullModelAssoc(bool, Perm&)' at assoc.cpp:1647:26:
/usr/include/c++/12/ostream:221:25: warning: 'mult_chisq' may be used uninitialized [-Wmaybe-uninitialized]
221 | { return _M_insert(__f); }
| ~~~~~~~~~^~~~~
assoc.cpp: In member function 'std::vector<double> Plink::fullModelAssoc(bool, Perm&)':
assoc.cpp:1385:22: note: 'mult_chisq' was declared here
1385 | double mult_p, mult_chisq;
| ^~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c phase.cpp
In file included from /usr/include/c++/12/map:60,
from prephap.cpp:20:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, int>}; _Key = std::__cxx11::basic_string<char>; _Val = std::pair<const std::__cxx11::basic_string<char>, double>; _KeyOfValue = std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::pair<std::_Rb_tree_node_base*, std::_Rb_tree_node_base*> std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = std::__cxx11::basic_string<char>; _Val = std::pair<const std::__cxx11::basic_string<char>, double>; _KeyOfValue = std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2209:5: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator' changed in GCC 7.1
2209 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from phase.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from phase.cpp:27:
genogroup.h: In member function 'bool MultiLocusGenotype::operator<(const MultiLocusGenotype&) const':
genogroup.h:27:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
27 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
genogroup.h: In member function 'bool MultiLocusGenotype::operator==(const MultiLocusGenotype&) const':
genogroup.h:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
34 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
In file included from phase.cpp:28:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
phase.cpp: In member function 'vector_t HaploPhase::phaseAllHaplotypes(bool, Perm&)':
phase.cpp:373:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
373 | for (int i=0; i<t.size(); i++)
| ~^~~~~~~~~
phase.cpp: In member function 'void HaploPhase::enumerateHaplotypes(std::vector<int>&)':
phase.cpp:472:11: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
472 | while (h<nh)
| ~^~~
phase.cpp: In member function 'void HaploPhase::performAlternEM()':
phase.cpp:678:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
678 | for (int z=0; z<currentStub.size(); z++)
| ~^~~~~~~~~~~~~~~~~~~
phase.cpp:1187:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::map<std::vector<int>, int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1187 | if ( nh != hapmap.size() )
| ~~~^~~~~~~~~~~~~~~~
phase.cpp:1238:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1238 | for (int z=0; z<hap1[par::haplo_plem_follow_ind].size(); z++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
phase.cpp:1280:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1280 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
phase.cpp:1299:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1299 | for (int z=0; z<hap1[par::haplo_plem_follow_ind].size(); z++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
phase.cpp:1575:39: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1575 | for ( int z = 0 ; z < pp[i].size() ; z++ )
| ~~^~~~~~~~~~~~~~
phase.cpp: In member function 'void HaploPhase::prunePhase(int)':
phase.cpp:1829:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1829 | for (int z=0; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
phase.cpp:1843:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1843 | for (int z=0; z < new_pp.size(); z++)
| ~~^~~~~~~~~~~~~~~
phase.cpp: In member function 'double HaploPhase::dosage(int, std::set<int>&)':
phase.cpp:1888:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1888 | for (int z = 0; z < h1.size(); z++)
| ~~^~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c trio.cpp
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::calcAssociationWithPermutation(Perm&)' at assoc.cpp:357:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::calcAssociationWithPermutation(Perm&)' at assoc.cpp:363:19:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::calcAssociationWithPermutation(Perm&)' at assoc.cpp:722:14:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/12/map:61:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, int>}; _Key = std::__cxx11::basic_string<char>; _Tp = double; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<std::__cxx11::basic_string<char>, int>; _Key = std::__cxx11::basic_string<char>; _Tp = double; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void HaploPhase::readTagFile()' at prephap.cpp:422:16:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<std::__cxx11::basic_string<char>, double>::const_iterator' {aka 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, int>}; _Key = std::__cxx11::basic_string<char>; _Tp = double; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<std::__cxx11::basic_string<char>, int>; _Key = std::__cxx11::basic_string<char>; _Tp = double; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void HaploPhase::readTagFile()' at prephap.cpp:427:16:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<std::__cxx11::basic_string<char>, double>::const_iterator' {aka 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from trio.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
trio.cpp: In function 'void addPerson(Family*, Individual*)':
trio.cpp:91:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
91 | for (int c=0; c<f->kid.size(); c++)
| ~^~~~~~~~~~~~~~
trio.cpp: In member function 'void Plink::parseTrios()':
trio.cpp:258:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
258 | for (int k=0; k<mf->kid.size(); k++)
| ~^~~~~~~~~~~~~~~
trio.cpp:272:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
272 | for (int k=0; k<mf->kid.size(); k++)
| ~^~~~~~~~~~~~~~~
trio.cpp:335:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
335 | for (int k=0; k < (*f)->kid.size() ;k++)
| ~~^~~~~~~~~~~~~~~~~~
trio.cpp:342:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
342 | for ( int k=0; k<(*f)->kid.size(); k++)
| ~^~~~~~~~~~~~~~~~~
trio.cpp:350:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
350 | for ( int k=0; k<(*f)->kid.size(); k++)
| ~^~~~~~~~~~~~~~~~~
trio.cpp: In member function 'void Plink::checkMendel()':
trio.cpp:469:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
469 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
trio.cpp:474:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
474 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
trio.cpp:492:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
492 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
trio.cpp:504:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
504 | for (int c=0; c<kid.size(); c++)
| ~^~~~~~~~~~~
trio.cpp:871:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
871 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
trio.cpp:882:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
882 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
trio.cpp:895:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
895 | for (int c=0; c<kid.size(); c++)
| ~^~~~~~~~~~~
trio.cpp:931:13: warning: unused variable 'tmp' [-Wunused-variable]
931 | int tmp = deleteSNPs(mendel_locus);
| ^~~
trio.cpp:936:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
936 | for (int f=0;f<family.size();f++)
| ~^~~~~~~~~~~~~~
trio.cpp:943:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
943 | for (int c=0; c<family[f]->kid.size(); c++)
| ~^~~~~~~~~~~~~~~~~~~~~~
trio.cpp:962:13: warning: unused variable 'tmp' [-Wunused-variable]
962 | int tmp = deleteIndividuals(indel);
| ^~~
trio.cpp: In member function 'void Plink::pseudoCaseControl()':
trio.cpp:1038:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1038 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
trio.cpp:1048:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1048 | for (int c=0; c<kid.size(); c++)
| ~^~~~~~~~~~~
trio.cpp: In member function 'void Plink::makeMissingParents()':
trio.cpp:1236:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1236 | for ( int k=0; k<person->pm->kids.size(); k++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~
trio.cpp:1245:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1245 | for ( int k=0; k<person->pp->kids.size(); k++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from phase.cpp:19:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::enumerateHaplotypes(std::vector<int>&)' at phase.cpp:466:19:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::enumerateHaplotypes(std::vector<int>&)' at phase.cpp:467:21:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::prunePhase(int)' at phase.cpp:1833:20:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c tdt.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c sharing.cpp
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::performAlternEM()' at phase.cpp:1078:35:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::performAlternEM()' at phase.cpp:1091:39:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::performAlternEM()' at phase.cpp:1225:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::performAlternEM()' at phase.cpp:1226:18:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::performAlternEM()' at phase.cpp:1506:28:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::performAlternEM()' at phase.cpp:1588:37:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from tdt.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from perm.h:17,
from sharing.cpp:19:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
tdt.cpp: In member function 'void Plink::perm_testTDT(Perm&)':
tdt.cpp:81:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
81 | for (int i=0; i<klist[k]->person.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~
tdt.cpp:96:30: warning: unused variable 'person' [-Wunused-variable]
96 | Individual * person = klist[k]->person[i];
| ^~~~~~
tdt.cpp:132:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
132 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
tdt.cpp:144:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
144 | for (int c=0; c < fam->kid.size(); c++)
| ~~^~~~~~~~~~~~~~~~~
tdt.cpp:210:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
210 | for (int i=0; i<pS->profileSNPs.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~~~~~
tdt.cpp:234:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
234 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
tdt.cpp:327:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
327 | for (int j=0; j<pS->selectedSNPs[l].size(); j++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~
tdt.cpp:330:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
330 | if ( j < pS->selectedSNPs[l].size() - 1 )
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
tdt.cpp:412:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<std::vector<double> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
412 | for (int i=0;i<pS->pv_set.size();i++)
| ~^~~~~~~~~~~~~~~~~~
tdt.cpp:415:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
415 | for (int j=0;j<pS->pv_set[i].size();j++)
| ~^~~~~~~~~~~~~~~~~~~~~
tdt.cpp: In member function 'std::vector<double> Plink::testTDT(bool, bool, Perm&, std::vector<bool>&, std::vector<bool>&)':
tdt.cpp:522:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
522 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
tdt.cpp:557:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
557 | for (int c=0; c<kid.size(); c++)
| ~^~~~~~~~~~~
tdt.cpp:668:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
668 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
tdt.cpp:776:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
776 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
sharing.cpp: In member function 'void Plink::perm_sharingIBSTest(Perm&)':
sharing.cpp:102:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
102 | for (int l=0; l<snpset.size(); l++)
| ~^~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c genepi.cpp
In file included from /usr/include/c++/12/vector:70,
from tdt.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t HaploPhase::phaseAllHaplotypes(bool, Perm&)' at phase.cpp:301:17:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t HaploPhase::phaseAllHaplotypes(bool, Perm&)' at phase.cpp:302:19:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t HaploPhase::phaseAllHaplotypes(bool, Perm&)' at phase.cpp:306:25:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t HaploPhase::phaseAllHaplotypes(bool, Perm&)' at phase.cpp:307:26:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t HaploPhase::phaseAllHaplotypes(bool, Perm&)' at phase.cpp:374:20:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
tdt.cpp: In member function 'std::vector<double> Plink::testTDT(bool, bool, Perm&, std::vector<bool>&, std::vector<bool>&)':
tdt.cpp:937:55: warning: 'zt' may be used uninitialized [-Wmaybe-uninitialized]
937 | double OR_upper = exp( log(OR) + zt * sqrt(1/t1+1/t2)) ;
| ~~~^~~~~~~~~~~~~~~~~
tdt.cpp:460:10: note: 'zt' was declared here
460 | double zt;
| ^~
In file included from genepi.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
genepi.cpp: In function 'double C(int, double, double)':
genepi.cpp:78:1: warning: no return statement in function returning non-void [-Wreturn-type]
78 | }
| ^
genepi.cpp: In function 'long double pillai(int, int, int, double)':
genepi.cpp:169:1: warning: no return statement in function returning non-void [-Wreturn-type]
169 | }
| ^
genepi.cpp: In member function 'void Plink::driverSCREEPI()':
genepi.cpp:334:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
334 | for (int s=0; s<snpset.size(); s++)
| ~^~~~~~~~~~~~~~
genepi.cpp: In function 'void CCA_logit(bool, std::vector<std::vector<int> >&, Set&, Plink&)':
genepi.cpp:489:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
489 | for (int l=0; l<P.snpset[s1].size(); l++)
| ~^~~~~~~~~~~~~~~~~~~~
genepi.cpp:497:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
497 | for (int l=0; l<P.snpset[s2].size(); l++)
| ~^~~~~~~~~~~~~~~~~~~~
genepi.cpp:506:17: warning: unused variable 'n12' [-Wunused-variable]
506 | int n12 = n1 + n2;
| ^~~
genepi.cpp:507:17: warning: unused variable 'ne' [-Wunused-variable]
507 | int ne = n1 < n2 ? n1 : n2;
| ^~
genepi.cpp: In function 'void CCA_caseonly(bool, std::vector<std::vector<int> >&, Set&, Plink&)':
genepi.cpp:1025:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1025 | for (int l=0; l<P.snpset[s1].size(); l++)
| ~^~~~~~~~~~~~~~~~~~~~
genepi.cpp:1033:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1033 | for (int l=0; l<P.snpset[s2].size(); l++)
| ~^~~~~~~~~~~~~~~~~~~~
genepi.cpp:1043:17: warning: unused variable 'n12' [-Wunused-variable]
1043 | int n12 = n1 + n2;
| ^~~
genepi.cpp:1044:17: warning: unused variable 'ne' [-Wunused-variable]
1044 | int ne = n1 < n2 ? n1 : n2;// ne = min(p,q)
| ^~
genepi.cpp:1064:17: warning: unused variable 'nind' [-Wunused-variable]
1064 | int nind = calcGENEPIMeanVariance(pSNP,
| ^~~~
genepi.cpp: In function 'int calcGENEPIMeanVariance(std::vector<CSNP*>&, int, int, bool, Plink*, std::vector<double>&, std::vector<std::vector<double> >&, std::vector<Individual*>&, std::vector<int>&, std::vector<int>&)':
genepi.cpp:1198:8: warning: unused variable 'casewise_deletion' [-Wunused-variable]
1198 | bool casewise_deletion = false;
| ^~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c sets.cpp
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::perm_testTDT(Perm&)' at tdt.cpp:186:15:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/12/bits/stl_algo.h:60,
from /usr/include/c++/12/algorithm:61,
from genepi.cpp:19:
/usr/include/c++/12/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]':
/usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from sets.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from sets.cpp:24:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
sets.cpp: In member function 'void Set::sizeSets()':
sets.cpp:37:16: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
37 | for(int s=0;s<snpset.size();s++)
| ~^~~~~~~~~~~~~~
sets.cpp:52:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
52 | for(int i=0;i<snpset.size();i++)
| ~^~~~~~~~~~~~~~
sets.cpp:59:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
59 | else if (par::set_min > snpset[i].size() )
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
sets.cpp:62:48: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
62 | if (par::set_max==-1 || par::set_max > snpset[i].size() )
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
sets.cpp: In member function 'void Set::pruneSets(Plink&)':
sets.cpp:99:16: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
99 | for(int i=0;i<snpset.size();i++)
| ~^~~~~~~~~~~~~~
sets.cpp: In member function 'void Set::pruneMC(Plink&, bool, double)':
sets.cpp:129:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
129 | for (int s=0; s<snpset.size(); s++)
| ~^~~~~~~~~~~~~~
sets.cpp:176:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
176 | for (int s=0; s<snpset.size(); s++)
| ~^~~~~~~~~~~~~~
sets.cpp: In member function 'void Set::dropNotSet(Plink&)':
sets.cpp:216:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
216 | for (int i=0;i<snpset.size();i++)
| ~^~~~~~~~~~~~~~
sets.cpp:218:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
218 | for (int j=0; j < snpset[i].size(); j++)
| ~~^~~~~~~~~~~~~~~~~~
sets.cpp:236:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
236 | for (int i=0;i<snpset.size();i++)
| ~^~~~~~~~~~~~~~
sets.cpp:237:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
237 | for (int j=0; j < snpset[i].size(); j++)
| ~~^~~~~~~~~~~~~~~~~~
sets.cpp: In member function 'void Set::makeLDSets()':
sets.cpp:317:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
317 | for (int i=0;i<snpset.size();i++)
| ~^~~~~~~~~~~~~~
sets.cpp:323:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
323 | for (int j=0; j < snpset[i].size(); j++)
| ~~^~~~~~~~~~~~~~~~~~
sets.cpp:329:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
329 | for (int j=0; j < snpset[i].size(); j++)
| ~~^~~~~~~~~~~~~~~~~~
sets.cpp:332:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
332 | for (int k=j+1; k < snpset[i].size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
sets.cpp:367:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
367 | for (int i=0;i<snpset.size();i++)
| ~^~~~~~~~~~~~~~
sets.cpp:370:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
370 | for (int j=0; j < snpset[i].size(); j++)
| ~~^~~~~~~~~~~~~~~~~~
sets.cpp: In member function 'void Set::initialiseSetMapping()':
sets.cpp:412:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
412 | for (int i=0;i<snpset.size();i++)
| ~^~~~~~~~~~~~~~
sets.cpp:413:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
413 | for (int j=0; j < snpset[i].size(); j++)
| ~~^~~~~~~~~~~~~~~~~~
sets.cpp: In member function 'void Set::empiricalSetPValues()':
sets.cpp:618:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<std::vector<double> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
618 | for (int i=0;i<stat_set.size();i++)
| ~^~~~~~~~~~~~~~~~
sets.cpp:619:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
619 | for (int j=0;j<stat_set[i].size();j++)
| ~^~~~~~~~~~~~~~~~~~~
sets.cpp:631:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<std::vector<double> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
631 | for (int i=0;i<pv_set.size();i++)
| ~^~~~~~~~~~~~~~
sets.cpp:632:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
632 | for (int j=0;j<pv_set[i].size();j++)
| ~^~~~~~~~~~~~~~~~~
sets.cpp:642:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<std::vector<double> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
642 | for (int i=0;i<pv_set.size();i++)
| ~^~~~~~~~~~~~~~
sets.cpp:643:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
643 | for (int j=0;j<pv_set[i].size();j++)
| ~^~~~~~~~~~~~~~~~~
sets.cpp: In member function 'vector_t Set::profileTestScore()':
sets.cpp:703:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
703 | for (int i=0; i<snpset.size(); i++)
| ~^~~~~~~~~~~~~~
sets.cpp:713:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
713 | for (int j=0; j<profileSNPs[i].size(); j++)
| ~^~~~~~~~~~~~~~~~~~~~~~
sets.cpp: In member function 'vector_t Set::fitLDSetTest(vector_t&, bool)':
sets.cpp:905:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
905 | for (int i=0; i<snpset.size(); i++)
| ~^~~~~~~~~~~~~~
sets.cpp:975:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
975 | for (int k=0; k<selected.size(); k++)
| ~^~~~~~~~~~~~~~~~
sets.cpp: In member function 'vector_t Set::fitStepwiseModel()':
sets.cpp:1042:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1042 | for (int i=0; i<snpset.size(); i++)
| ~^~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from /usr/include/c++/12/functional:62,
from genepi.cpp:20:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'int calcGENEPIMeanVariance(std::vector<CSNP*>&, int, int, bool, Plink*, std::vector<double>&, std::vector<std::vector<double> >&, std::vector<Individual*>&, std::vector<int>&, std::vector<int>&)' at genepi.cpp:1213:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'int calcGENEPIMeanVariance(std::vector<CSNP*>&, int, int, bool, Plink*, std::vector<double>&, std::vector<std::vector<double> >&, std::vector<Individual*>&, std::vector<int>&, std::vector<int>&)' at genepi.cpp:1219:23:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c perm.cpp
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'int calcGENEPIMeanVariance(std::vector<CSNP*>&, int, int, bool, Plink*, std::vector<double>&, std::vector<std::vector<double> >&, std::vector<Individual*>&, std::vector<int>&, std::vector<int>&)' at genepi.cpp:1213:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'int calcGENEPIMeanVariance(std::vector<CSNP*>&, int, int, bool, Plink*, std::vector<double>&, std::vector<std::vector<double> >&, std::vector<Individual*>&, std::vector<int>&, std::vector<int>&)' at genepi.cpp:1219:23:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]':
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1908 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]',
inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = greater<double>]' at /usr/include/c++/12/bits/stl_algo.h:4853:18,
inlined from 'void CCA_caseonly(bool, std::vector<std::vector<int> >&, Set&, Plink&)' at genepi.cpp:1145:17:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = greater<double>]' at /usr/include/c++/12/bits/stl_algo.h:4853:18,
inlined from 'void CCA_caseonly(bool, std::vector<std::vector<int> >&, Set&, Plink&)' at genepi.cpp:1145:17:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from perm.h:17,
from perm.cpp:17:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/bits/stl_algo.h:60,
from /usr/include/c++/12/algorithm:61,
from sets.cpp:16:
/usr/include/c++/12/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SetSortedSNP*, vector<SetSortedSNP> >; _Distance = int; _Tp = SetSortedSNP; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SetSortedSNP*, std::vector<SetSortedSNP> >' changed in GCC 7.1
224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SetSortedSNP*, vector<SetSortedSNP> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SetSortedSNP*, std::vector<SetSortedSNP> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SetSortedSNP*, std::vector<SetSortedSNP> >' changed in GCC 7.1
perm.cpp: In member function 'void Perm::permuteInCluster()':
perm.cpp:144:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
144 | for (int j=0; j<s.size(); j++)
| ~^~~~~~~~~
perm.cpp:145:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
145 | for (int k=0; k<s[j].size(); k++)
| ~^~~~~~~~~~~~
perm.cpp: In member function 'void Perm::setOriginalRanking(vector_t&)':
perm.cpp:187:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
187 | for (int i=0; i<original.size(); i++)
| ~^~~~~~~~~~~~~~~~
perm.cpp:199:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
199 | for(int i=0; i<original.size(); i++)
| ~^~~~~~~~~~~~~~~~
perm.cpp: In member function 'bool Perm::update(std::vector<double>&, std::vector<double>&)':
perm.cpp:273:41: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
273 | for (int j=0;j< P.pS->snpset[l].size();j++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SetSortedSNP*, vector<SetSortedSNP> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SetSortedSNP*, std::vector<SetSortedSNP> >' changed in GCC 7.1
1908 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SetSortedSNP*, std::vector<SetSortedSNP> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SetSortedSNP*, std::vector<SetSortedSNP> >' changed in GCC 7.1
1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
genepi.cpp: In function 'void CCA_logit(bool, std::vector<std::vector<int> >&, Set&, Plink&)':
genepi.cpp:805:103: warning: 'cancor1_pos' may be used uninitialized [-Wmaybe-uninitialized]
805 | gene1[i] += (-1 - mean[j]) * coeff_gene1[order_eigenvalues_gene1[cancor1_pos]][j];
| ^
genepi.cpp:614:17: note: 'cancor1_pos' was declared here
614 | int cancor1_pos;
| ^~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]',
inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = greater<double>]' at /usr/include/c++/12/bits/stl_algo.h:4853:18,
inlined from 'void CCA_logit(bool, std::vector<std::vector<int> >&, Set&, Plink&)' at genepi.cpp:607:10:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = greater<double>]' at /usr/include/c++/12/bits/stl_algo.h:4853:18,
inlined from 'void CCA_logit(bool, std::vector<std::vector<int> >&, Set&, Plink&)' at genepi.cpp:607:10:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]',
inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = greater<double>]' at /usr/include/c++/12/bits/stl_algo.h:4853:18,
inlined from 'void CCA_logit(bool, std::vector<std::vector<int> >&, Set&, Plink&)' at genepi.cpp:690:17:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<greater<double> >]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = greater<double>]' at /usr/include/c++/12/bits/stl_algo.h:4853:18,
inlined from 'void CCA_logit(bool, std::vector<std::vector<int> >&, Set&, Plink&)' at genepi.cpp:690:17:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/bits/stl_algo.h:60,
from /usr/include/c++/12/algorithm:61,
from perm.cpp:15:
/usr/include/c++/12/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair2*, vector<Pair2> >; _Distance = int; _Tp = Pair2; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1908 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair2*, vector<Pair2> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair2*, vector<Pair2> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
1908 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<double*, vector<double> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'bool Perm::update(std::vector<double>&, std::vector<double>&)' at perm.cpp:370:8:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<double*, vector<double> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'bool Perm::update(std::vector<double>&, std::vector<double>&)' at perm.cpp:370:8:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from sets.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Set::profileTestScore()' at sets.cpp:788:24:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Set::profileTestSNPInformation(int, double)' at sets.cpp:684:36:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from options.h:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Pair2&}; _Tp = Pair2; _Alloc = std::allocator<Pair2>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Pair2>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Pair2; _Alloc = std::allocator<Pair2>]',
inlined from 'void Perm::setOriginalRanking(vector_t&)' at perm.cpp:192:18:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair2*, vector<Pair2> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Pair2*, vector<Pair2> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Perm::setOriginalRanking(vector_t&)' at perm.cpp:195:7:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair2*, vector<Pair2> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair2*, vector<Pair2> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Pair2*, vector<Pair2> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Perm::setOriginalRanking(vector_t&)' at perm.cpp:195:7:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair2*, std::vector<Pair2> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c mh.cpp
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SetSortedSNP*, vector<SetSortedSNP> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<SetSortedSNP*, vector<SetSortedSNP> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'vector_t Set::fitLDSetTest(vector_t&, bool)' at sets.cpp:927:11:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SetSortedSNP*, std::vector<SetSortedSNP> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SetSortedSNP*, vector<SetSortedSNP> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SetSortedSNP*, vector<SetSortedSNP> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<SetSortedSNP*, vector<SetSortedSNP> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'vector_t Set::fitLDSetTest(vector_t&, bool)' at sets.cpp:927:11:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SetSortedSNP*, std::vector<SetSortedSNP> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SetSortedSNP*, std::vector<SetSortedSNP> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c genedrop.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c gxe.cpp
In file included from perm.h:17,
from mh.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from perm.h:17,
from genedrop.cpp:17:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
mh.cpp: In member function 'std::vector<double> Plink::calcMantelHaenszel_IxJxK(std::vector<int>&, std::vector<int>&, std::vector<int>&)':
mh.cpp:747:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
747 | for (int i=0; i<X.size(); i++)
| ~^~~~~~~~~
mh.cpp: In member function 'std::vector<double> Plink::calcMantelHaenszel_ORD(std::vector<int>&, std::vector<int>&, std::vector<int>&)':
mh.cpp:1249:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1249 | for (int i=0; i<X.size(); i++)
| ~^~~~~~~~~
mh.cpp:1312:1: warning: no return statement in function returning non-void [-Wreturn-type]
1312 | }
| ^
genedrop.cpp: In member function 'void Perm::preGeneDrop()':
genedrop.cpp:64:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
64 | for (int i=0; i<P.sample.size(); i++)
| ~^~~~~~~~~~~~~~~~
genedrop.cpp: In member function 'void Perm::dropAlleles(Plink&, Individual*, int, int, std::vector<bool>&, std::vector<bool>&, std::vector<bool>&, std::map<Individual*, int>&)':
genedrop.cpp:340:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
340 | for (int k=0; k<person->kids.size(); k++)
| ~^~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c merge.cpp
In file included from helper.h:24,
from gxe.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from merge.cpp:22:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
merge.cpp: In member function 'void Plink::mergeData()':
merge.cpp:333:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
333 | for (int i=0; i<include.size(); i++)
| ~^~~~~~~~~~~~~~~
merge.cpp:377:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
377 | for (int l=0; l<locus2.size(); l++)
| ~^~~~~~~~~~~~~~
merge.cpp:395:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
395 | for (int l=0;l<locus.size();l++)
| ~^~~~~~~~~~~~~
merge.cpp:403:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
403 | for (int l=0;l<locus.size();l++)
| ~^~~~~~~~~~~~~
merge.cpp:426:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
426 | for (int i=0; i<locus2.size()-exist_cnt; i++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~
merge.cpp:722:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
722 | if ( i > include.size())
| ~~^~~~~~~~~~~~~~~~
merge.cpp:733:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
733 | if ( gn != 2 * include.size() )
| ~~~^~~~~~~~~~~~~~~~~~~~~
merge.cpp:784:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
784 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
merge.cpp:830:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
830 | for (int i=0;i<sample.size();i++)
| ~^~~~~~~~~~~~~~
merge.cpp:842:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
842 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c hotel.cpp
In file included from hotel.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
hotel.cpp: In member function 'void Plink::perm_testHotel(Perm&)':
hotel.cpp:77:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else]
77 | if (!sample[i]->missing)
| ^
hotel.cpp:173:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
173 | for (int s=0; s<snpset.size(); s++)
| ~^~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c multiple.cpp
In file included from /usr/include/c++/12/algorithm:61,
from merge.cpp:19:
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _OutputIterator = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2615 | __move_merge(_InputIterator __first1, _InputIterator __last1,
| ^~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = Locus*; _OutputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2682 | __merge_sort_with_buffer(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__chunk_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2693:34:
/usr/include/c++/12/bits/stl_algo.h:2672:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2672 | std::__insertion_sort(__first, __first + __chunk_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2675 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _RandomAccessIterator2 = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2697:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = Locus*; _RandomAccessIterator2 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2700:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from hotel.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function '_RandomAccessIterator std::_V2::__rotate(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]':
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1281 | __rotate(_RandomAccessIterator __first,
| ^~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2451 | __merge_without_buffer(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2491:15:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2492:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2492 | std::__merge_without_buffer(__first, __first_cut, __new_middle,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2493 | __len11, __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2494:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2494 | std::__merge_without_buffer(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2495 | __len1 - __len11, __len2 - __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void calcHotelSetMeanVariance(std::vector<CSNP*>&, std::vector<double>&, std::vector<double>&, std::vector<std::vector<double> >&, std::vector<Individual*>&, int, int)' at hotel.cpp:458:21:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2739 | __inplace_stable_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In file included from helper.h:24,
from multiple.cpp:22:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
multiple.cpp: In member function 'void Plink::multcomp(std::vector<double>&, std::string)':
multiple.cpp:85:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
85 | for (int l=0; l<chi.size(); l++)
| ~^~~~~~~~~~~
multiple.cpp:131:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Pair>::size_type' {aka 'unsigned int'} [-Wsign-compare]
131 | for (int i=0; i<schi.size(); i++)
| ~^~~~~~~~~~~~
merge.cpp: In member function 'bool Plink::reconcileMerge(int, int, std::string, std::string, bool, bool, std::ofstream&, std::map<std::__cxx11::basic_string<char>, int>&)':
merge.cpp:1103:3: warning: 'write' may be used uninitialized [-Wmaybe-uninitialized]
1103 | if (write)
| ^~
merge.cpp:943:8: note: 'write' was declared here
943 | bool write;
| ^~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c haploCC.cpp
In file included from /usr/include/c++/12/bits/stl_algo.h:60,
from /usr/include/c++/12/algorithm:61,
from multiple.cpp:18:
/usr/include/c++/12/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >; _Distance = int; _Tp = Pair; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1908 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from multiple.cpp:17:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Pair&}; _Tp = Pair; _Alloc = std::allocator<Pair>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Pair>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/bits/stl_algo.h:61:
/usr/include/c++/12/bits/stl_tempbuf.h: In constructor 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, size_type) [with _ForwardIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >; _Tp = Locus]':
/usr/include/c++/12/bits/stl_tempbuf.h:258:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
258 | _Temporary_buffer<_ForwardIterator, _Tp>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Pair; _Alloc = std::allocator<Pair>]',
inlined from 'void Plink::multcomp(std::vector<double>&, std::string)' at multiple.cpp:96:20:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Pair; _Alloc = std::allocator<Pair>]',
inlined from 'void Plink::multcomp(std::vector<double>&, std::string)' at multiple.cpp:101:22:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Plink::multcomp(std::vector<double>&, std::string)' at multiple.cpp:115:7:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Plink::multcomp(std::vector<double>&, std::string)' at multiple.cpp:115:7:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Plink::multcomp(std::vector<double>&, std::string)' at multiple.cpp:116:7:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Pair*, vector<Pair> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Plink::multcomp(std::vector<double>&, std::string)' at multiple.cpp:116:7:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Pair*, std::vector<Pair> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c haploTDT.cpp
/usr/include/c++/12/bits/stl_algo.h: In function '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]':
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2352 | __rotate_adaptive(_BidirectionalIterator1 __first,
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]' at /usr/include/c++/12/bits/stl_algo.h:2383:20:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_adaptive(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Pointer, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2390 | __merge_adaptive(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2435:37: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2435 | = std::__rotate_adaptive(__first_cut, __middle, __second_cut,
| ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2436 | __len1 - __len11, __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2437 | __buffer_size);
| ~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2438:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2438 | std::__merge_adaptive(__first, __first_cut, __new_middle, __len11,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2439 | __len22, __buffer, __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2440:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2440 | std::__merge_adaptive(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2441 | __len1 - __len11,
| ~~~~~~~~~~~~~~~~~
2442 | __len2 - __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
2443 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__stable_sort_adaptive(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2709 | __stable_sort_adaptive(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2718:38: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2718 | std::__stable_sort_adaptive(__first, __middle, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2719 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2720:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2720 | std::__stable_sort_adaptive(__middle, __last, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
2721 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2725:40: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2725 | std::__merge_sort_with_buffer(__first, __middle, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2726:40: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2726 | std::__merge_sort_with_buffer(__middle, __last, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2729:28: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2729 | std::__merge_adaptive(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2730 | _Distance(__middle - __first),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2731 | _Distance(__last - __middle),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2732 | __buffer, __buffer_size,
| ~~~~~~~~~~~~~~~~~~~~~~~~
2733 | __comp);
| ~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from merge.cpp:21:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Locus&}; _Tp = Locus; _Alloc = std::allocator<Locus>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Locus>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c poo.cpp
In file included from haploCC.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Locus; _Alloc = std::allocator<Locus>]',
inlined from 'void Plink::mergeData()' at merge.cpp:304:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::mergeData()' at merge.cpp:330:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::mergeData()' at merge.cpp:354:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from haploCC.cpp:25:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
haploCC.cpp: In member function 'void HaploPhase::haplotypicCC(std::map<int, int>&, int, bool)':
haploCC.cpp:48:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
48 | for (int z = 0 ; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
haploCC.cpp:62:41: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
62 | if ( ! ( haploid || X && person->sex ) )
| ~~^~~~~~~~~~~~~~
haploCC.cpp:79:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
79 | for (int z = 0 ; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
haploCC.cpp:93:41: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
93 | if ( ! ( haploid || X && person->sex ) )
| ~~^~~~~~~~~~~~~~
haploCC.cpp:268:14: warning: unused variable 'p' [-Wunused-variable]
268 | double p = ( n1 * p1 + n2 * p2 ) / ( n1 + n2 );
| ^
haploCC.cpp: In member function 'void HaploPhase::haplotypicWeightedCC()':
haploCC.cpp:340:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
340 | for (int z = 0 ; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
haploCC.cpp:357:41: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
357 | if ( ! ( haploid || X && person->sex ) )
| ~~^~~~~~~~~~~~~~
haploCC.cpp:375:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
375 | for (int z = 0 ; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
haploCC.cpp:392:42: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
392 | if ( ! ( haploid || X && person->sex ) )
| ~~^~~~~~~~~~~~~~
In file included from haploTDT.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from haploTDT.cpp:25:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
In file included from poo.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
poo.cpp: In member function 'void Plink::perm_testTDT_POO(Perm&)':
poo.cpp:93:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
93 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
poo.cpp:195:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<std::vector<double> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
195 | for (int i=0;i<pS->pv_set.size();i++)
| ~^~~~~~~~~~~~~~~~~~
poo.cpp:198:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
198 | for (int j=0;j<pS->pv_set[i].size();j++)
| ~^~~~~~~~~~~~~~~~~~~~~
poo.cpp: In member function 'std::vector<double> Plink::testTDT_POO(bool, bool, Perm&, std::vector<bool>&, std::vector<bool>&)':
poo.cpp:293:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
293 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
poo.cpp:328:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
328 | for (int c=0; c<kid.size(); c++)
| ~^~~~~~~~~~~
poo.cpp:239:10: warning: unused variable 'zt' [-Wunused-variable]
239 | double zt;
| ^~
In file included from /usr/include/c++/12/vector:70,
from haploTDT.cpp:20:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::haplotypicWeightedTDT()' at haploTDT.cpp:177:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void HaploPhase::haplotypicWeightedTDT()' at haploTDT.cpp:181:21:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from haploCC.cpp:20:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::haplotypicWeightedCC()' at haploCC.cpp:315:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void HaploPhase::haplotypicWeightedCC()' at haploCC.cpp:319:21:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c webcheck.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c qfam.cpp
In file included from /usr/include/c++/12/vector:70,
from poo.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::perm_testTDT_POO(Perm&)' at poo.cpp:59:15:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from helper.h:24,
from webcheck.cpp:19:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
webcheck.cpp: In member function 'void Plink::webcheck(CArgs&)':
webcheck.cpp:117:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
117 | for (int i=0; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
webcheck.cpp:130:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
130 | if ( i < tokens.size()-1 )
| ~~^~~~~~~~~~~~~~~~~
webcheck.cpp:146:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
146 | if ( i < tokens.size()-1 )
| ~~^~~~~~~~~~~~~~~~~
webcheck.cpp:180:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
180 | if ( i < tokens.size() - 1)
| ~~^~~~~~~~~~~~~~~~~~~
webcheck.cpp:218:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
218 | for (int i=0; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
In file included from helper.h:24,
from qfam.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
qfam.cpp: In function 'void scoreBetween(Plink&, int)':
qfam.cpp:82:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
82 | for (int k=0; k < (*f)->kid.size() ;k++)
| ~~^~~~~~~~~~~~~~~~~~
qfam.cpp:89:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
89 | for ( int k=0; k<(*f)->kid.size(); k++)
| ~^~~~~~~~~~~~~~~~~
qfam.cpp:97:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
97 | for ( int k=0; k<(*f)->kid.size(); k++)
| ~^~~~~~~~~~~~~~~~~
qfam.cpp: In member function 'void Plink::perm_testQTDT(Perm&)':
qfam.cpp:267:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
267 | for (int i=0; i < family.size(); i++)
| ~~^~~~~~~~~~~~~~~
qfam.cpp:315:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
315 | for (int f = 0 ; f < family.size() ; f++)
| ~~^~~~~~~~~~~~~~~
qfam.cpp: In member function 'vector_t Plink::calcQTDT(std::vector<int>&, std::ofstream&, bool, Perm&, std::vector<int>&, std::vector<bool>&)':
qfam.cpp:505:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
505 | for ( int k = 0 ; k < (*f)->kid.size() ; k++)
| ~~^~~~~~~~~~~~~~~~~~
qfam.cpp:648:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
648 | for (int i=0; i<family.size(); i++)
| ~^~~~~~~~~~~~~~
qfam.cpp:657:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
657 | for (int f=0; f<pbetween.size(); f++)
| ~^~~~~~~~~~~~~~~~
qfam.cpp:639:10: warning: unused variable 'tc' [-Wunused-variable]
639 | int tc = 0;
| ^~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c linear.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c bmerge.cpp
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from qfam.cpp:19:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c parse.cpp
In file included from helper.h:24,
from linear.cpp:19:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
linear.cpp: In member function 'virtual void LinearModel::pruneY()':
linear.cpp:50:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
50 | for (int i=0; i<Y.size(); i++)
| ~^~~~~~~~~
linear.cpp: In member function 'double LinearModel::getPValue()':
linear.cpp:734:8: warning: unused variable 'okay' [-Wunused-variable]
734 | bool okay = var[testParameter] < 1e-20 || !realnum(var[testParameter]) ? false : all_valid;
| ^~~~
In file included from bmerge.cpp:22:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
bmerge.cpp: In member function 'void Plink::mergeBinaryData()':
bmerge.cpp:90:16: warning: variable 'inc' set but not used [-Wunused-but-set-variable]
90 | long int inc;
| ^~~
bmerge.cpp:357:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus>::size_type' {aka 'unsigned int'} [-Wsign-compare]
357 | for (int i=0; i<ordered.size(); i++)
| ~^~~~~~~~~~~~~~~
bmerge.cpp:390:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
390 | for (int l=0; l<locus2.size(); l++)
| ~^~~~~~~~~~~~~~
bmerge.cpp:409:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
409 | for (int l=0;l<locus.size();l++)
| ~^~~~~~~~~~~~~
bmerge.cpp:417:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
417 | for (int l=0;l<locus.size();l++)
| ~^~~~~~~~~~~~~
bmerge.cpp:440:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
440 | for (int i=0; i<locus2.size()-exist_cnt; i++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~
bmerge.cpp:549:11: warning: variable 'indn' set but not used [-Wunused-but-set-variable]
549 | int indn = isample->second;
| ^~~~
bmerge.cpp:697:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
697 | while (s<locus2.size()) // for all SNPs in second file
| ~^~~~~~~~~~~~~~
bmerge.cpp:692:14: warning: unused variable 'snp' [-Wunused-variable]
692 | CSNP * snp;
| ^~~
bmerge.cpp:839:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
839 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
bmerge.cpp:871:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
871 | for (int i=0;i<sample.size();i++)
| ~^~~~~~~~~~~~~~
bmerge.cpp:883:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
883 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void Plink::perm_testQTDT(Perm&)' at qfam.cpp:414:15:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from parse.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
linear.cpp: In function 'void gaussj(matrix_t&, matrix_t&)':
linear.cpp:100:13: warning: 'irow' may be used uninitialized [-Wmaybe-uninitialized]
100 | indxr[i]=irow;
linear.cpp:75:14: note: 'irow' was declared here
75 | int i,icol,irow,j,k,l,ll;
| ^~~~
linear.cpp:108:7: warning: 'icol' may be used uninitialized [-Wmaybe-uninitialized]
108 | if (ll != icol) {
| ^~
linear.cpp:75:9: note: 'icol' was declared here
75 | int i,icol,irow,j,k,l,ll;
| ^~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c mishap.cpp
In file included from /usr/include/c++/12/vector:70,
from linear.h:17,
from linear.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'virtual void LinearModel::fitLM()' at linear.cpp:277:13:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'virtual void LinearModel::fitLM()' at linear.cpp:417:19:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/algorithm:61,
from bmerge.cpp:19:
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _OutputIterator = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2615 | __move_merge(_InputIterator __first1, _InputIterator __last1,
| ^~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = Locus*; _OutputIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2615:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'virtual void LinearModel::pruneY()' at linear.cpp:52:19:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'virtual void LinearModel::setDependent()' at linear.cpp:39:18:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from mishap.cpp:17:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2682 | __merge_sort_with_buffer(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2682:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__chunk_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2693:34:
/usr/include/c++/12/bits/stl_algo.h:2672:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2672 | std::__insertion_sort(__first, __first + __chunk_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2675 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2675:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _RandomAccessIterator2 = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2697:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function 'void std::__merge_sort_loop(_RandomAccessIterator1, _RandomAccessIterator1, _RandomAccessIterator2, _Distance, _Compare) [with _RandomAccessIterator1 = Locus*; _RandomAccessIterator2 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2700:26:
/usr/include/c++/12/bits/stl_algo.h:2650:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2650 | __result = std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2651 | __first + __step_size,
| ~~~~~~~~~~~~~~~~~~~~~~
2652 | __first + __two_step,
| ~~~~~~~~~~~~~~~~~~~~~
2653 | __result, __comp);
| ~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2658:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2658 | std::__move_merge(__first, __first + __step_size,
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2659 | __first + __step_size, __last, __result, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c legacy.cpp
In file included from mishap.cpp:20:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function '_RandomAccessIterator std::_V2::__rotate(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]':
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1281 | __rotate(_RandomAccessIterator __first,
| ^~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1281:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
mishap.cpp: In member function 'void Plink::performMisHapTests()':
mishap.cpp:209:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
209 | for (int z = 0 ; z < haplo->hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~
mishap.cpp:236:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
236 | for (int z = 0 ; z < haplo->hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~
mishap.cpp:349:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
349 | for (int z = 0 ; z < haplo->hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~
mishap.cpp:373:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
373 | for (int z = 0 ; z < haplo->hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2451 | __merge_without_buffer(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2451:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2491:15:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2492:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2492 | std::__merge_without_buffer(__first, __first_cut, __new_middle,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2493 | __len11, __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2494:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2494 | std::__merge_without_buffer(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2495 | __len1 - __len11, __len2 - __len22, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2739 | __inplace_stable_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2739:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2748:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2744:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2744 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2748:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2748 | std::__inplace_stable_sort(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2749 | std::__inplace_stable_sort(__middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33,
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:2749:33:
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2750:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2750 | std::__merge_without_buffer(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2751 | __middle - __first,
| ~~~~~~~~~~~~~~~~~~~
2752 | __last - __middle,
| ~~~~~~~~~~~~~~~~~~
2753 | __comp);
| ~~~~~~~
In file included from /usr/include/c++/12/bits/stl_algo.h:61:
/usr/include/c++/12/bits/stl_tempbuf.h: In constructor 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, size_type) [with _ForwardIterator = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >; _Tp = Locus]':
/usr/include/c++/12/bits/stl_tempbuf.h:258:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
258 | _Temporary_buffer<_ForwardIterator, _Tp>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]':
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2352 | __rotate_adaptive(_BidirectionalIterator1 __first,
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2352:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
In function '_FIter std::_V2::rotate(_FIter, _FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >]',
inlined from '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _BidirectionalIterator2 = Locus*; _Distance = int]' at /usr/include/c++/12/bits/stl_algo.h:2383:20:
/usr/include/c++/12/bits/stl_algo.h:1397:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1397 | return std::__rotate(__first, __middle, __last,
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1398 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__merge_adaptive(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Pointer, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Distance = int; _Pointer = Locus*; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2390 | __merge_adaptive(_BidirectionalIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2390:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2435:37: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2435 | = std::__rotate_adaptive(__first_cut, __middle, __second_cut,
| ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2436 | __len1 - __len11, __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2437 | __buffer_size);
| ~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2438:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2438 | std::__merge_adaptive(__first, __first_cut, __new_middle, __len11,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2439 | __len22, __buffer, __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2440:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2440 | std::__merge_adaptive(__new_middle, __second_cut, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2441 | __len1 - __len11,
| ~~~~~~~~~~~~~~~~~
2442 | __len2 - __len22, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
2443 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__stable_sort_adaptive(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Pointer = Locus*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2709 | __stable_sort_adaptive(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2709:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:2718:38: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2718 | std::__stable_sort_adaptive(__first, __middle, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2719 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2720:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2720 | std::__stable_sort_adaptive(__middle, __last, __buffer,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
2721 | __buffer_size, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2725:40: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2725 | std::__merge_sort_with_buffer(__first, __middle, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2726:40: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2726 | std::__merge_sort_with_buffer(__middle, __last, __buffer, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:2729:28: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
2729 | std::__merge_adaptive(__first, __middle, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2730 | _Distance(__middle - __first),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2731 | _Distance(__last - __middle),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2732 | __buffer, __buffer_size,
| ~~~~~~~~~~~~~~~~~~~~~~~~
2733 | __comp);
| ~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from bmerge.cpp:21:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Locus&}; _Tp = Locus; _Alloc = std::allocator<Locus>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Locus>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from helper.h:24,
from legacy.cpp:22:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
legacy.cpp: In member function 'void Plink::calcRegression(int)':
legacy.cpp:368:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
368 | for (int i=0; i<pair1.size(); i++)
| ~^~~~~~~~~~~~~
legacy.cpp:377:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
377 | for (int i=0;i<v_pihat.size();i++)
| ~^~~~~~~~~~~~~~~
legacy.cpp:381:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
381 | for (int i=0;i<pihat.size();i++)
| ~^~~~~~~~~~~~~
legacy.cpp:384:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
384 | for (int j=0;j<pihat[i].size();j++)
| ~^~~~~~~~~~~~~~~~
legacy.cpp:390:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
390 | for (int i=0;i<phenotype.size();i++)
| ~^~~~~~~~~~~~~~~~~
legacy.cpp:395:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
395 | for (int i=0;i<pihat_G.size();i++)
| ~^~~~~~~~~~~~~~~
legacy.cpp:415:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
415 | for (int i=0; i<in_anal.size(); i++)
| ~^~~~~~~~~~~~~~~
legacy.cpp:424:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
424 | for (int i=0; i<in_anal.size(); i++)
| ~^~~~~~~~~~~~~~~
legacy.cpp:460:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
460 | for (int j=0; j<s.size(); j++)
| ~^~~~~~~~~
legacy.cpp:461:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
461 | for (int k=0; k<s[j].size(); k++)
| ~^~~~~~~~~~~~
legacy.cpp:462:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
462 | for (int i=0; i<pin_anal.size(); i++)
| ~^~~~~~~~~~~~~~~~
legacy.cpp:467:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
467 | for (int i=0; i<in_anal.size(); i++)
| ~^~~~~~~~~~~~~~~
legacy.cpp:480:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
480 | for (int i=0; i<pair1.size(); i++)
| ~^~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Locus; _Alloc = std::allocator<Locus>]',
inlined from 'void Plink::mergeBinaryData()' at bmerge.cpp:301:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::mergeBinaryData()' at bmerge.cpp:354:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::stable_sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<Locus*, vector<Locus> >]' at /usr/include/c++/12/bits/stl_algo.h:5034:36,
inlined from 'void Plink::mergeBinaryData()' at bmerge.cpp:370:14:
/usr/include/c++/12/bits/stl_algo.h:4996:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2);
| ^~~~~
/usr/include/c++/12/bits/stl_algo.h:4999:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
4999 | std::__inplace_stable_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:5001:36: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Locus*, std::vector<Locus> >' changed in GCC 7.1
5001 | std::__stable_sort_adaptive(__first, __last, __buf.begin(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
5002 | _DistanceType(__buf.size()), __comp);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from legacy.cpp:21:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Segment&}; _Tp = Segment; _Alloc = std::allocator<Segment>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Segment>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
legacy.cpp: In member function 'void Plink::findIBSRuns(Individual*, Individual*, std::ofstream&)':
legacy.cpp:206:65: warning: 'last' may be used uninitialized [-Wmaybe-uninitialized]
206 | << (double)( locus[start]->bp - locus[last]->bp ) / 1000.0
| ^
legacy.cpp:35:7: note: 'last' was declared here
35 | int last;
| ^~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Segment; _Alloc = std::allocator<Segment>]',
inlined from 'void Plink::findIBSRuns(Individual*, Individual*, std::ofstream&)' at legacy.cpp:177:25:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Segment*, std::vector<Segment> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::preCalcRegression_PIHAT()' at legacy.cpp:716:24:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::preCalcRegression_PIHAT()' at legacy.cpp:722:24:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c homozyg.cpp
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::calcRegression(int)' at legacy.cpp:549:23:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c segment.cpp
In file included from helper.h:24,
from homozyg.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
homozyg.cpp: In function 'void displayPoolVerbose(Plink&, Pool*, std::ofstream&)':
homozyg.cpp:673:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
673 | for (int i=0; i < plist.size(); i++)
| ~~^~~~~~~~~~~~~~
homozyg.cpp:695:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
695 | for (int i=0; i < plist.size(); i++)
| ~~^~~~~~~~~~~~~~
homozyg.cpp:722:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
722 | for (int i=0; i < plist.size(); i++)
| ~~^~~~~~~~~~~~~~
homozyg.cpp:756:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
756 | for (int i=0; i < plist.size(); i++)
| ~~^~~~~~~~~~~~~~
homozyg.cpp:773:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
773 | for (int i=0; i < plist.size(); i++)
| ~~^~~~~~~~~~~~~~
homozyg.cpp:861:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
861 | for (int i=0; i < plist.size(); i++)
| ~~^~~~~~~~~~~~~~
homozyg.cpp: In member function 'void Plink::summariseHomoRuns()':
homozyg.cpp:1134:34: warning: comparison of integer expressions of different signedness: 'std::set<Segment*, std::less<Segment*> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1134 | if ( thispool->segs.size() >= par::pool_size_min )
| ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
homozyg.cpp:1178:38: warning: comparison of integer expressions of different signedness: 'std::set<Segment*, std::less<Segment*> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1178 | if ( thispool->segs.size() >= par::pool_size_min )
| ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
homozyg.cpp:1331:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::set<Segment*, std::less<Segment*> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1331 | for (int i=0; i< (*pA)->segs.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~~
homozyg.cpp:1437:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1437 | for (int i=0; i < (*pA)->group.size() ; i++)
| ~~^~~~~~~~~~~~~~~~~~~~~
homozyg.cpp:1441:47: warning: comparison of integer expressions of different signedness: 'std::vector<int>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1441 | if ( (*pA)->match[i].size() >= maxlist )
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~
homozyg.cpp:1461:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1461 | for (int i=0; i < (*pA)->group.size() ; i++)
| ~~^~~~~~~~~~~~~~~~~~~~~
homozyg.cpp: In member function 'void Plink::findHomoWindow(Individual*, std::ofstream&)':
homozyg.cpp:2155:27: warning: value computed is not used [-Wunused-value]
2155 | homozygWindows[l] == 0;
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c model.cpp
In file included from helper.h:24,
from segment.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
segment.cpp: In member function 'void Plink::segmentPermutationTest(Perm&, bool, std::string, std::vector<int>&, std::vector<int>&, std::vector<int>&)':
segment.cpp:871:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
871 | if (!ibd)
| ^~
segment.cpp:875:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
875 | SIBS << setw(10) << original[l] << " "
| ^~~~
segment.cpp: In member function 'void Plink::testGenomeIBDByCovariate(Perm&)':
segment.cpp:954:22: warning: unused variable 'p1' [-Wunused-variable]
954 | Individual * p1 = sample[i1];
| ^~
segment.cpp:955:22: warning: unused variable 'p2' [-Wunused-variable]
955 | Individual * p2 = sample[i2];
| ^~
segment.cpp:1027:26: warning: unused variable 'p1' [-Wunused-variable]
1027 | Individual * p1 = sample[i1];
| ^~
segment.cpp:1028:26: warning: unused variable 'p2' [-Wunused-variable]
1028 | Individual * p2 = sample[i2];
| ^~
segment.cpp:950:7: warning: unused variable 'c' [-Wunused-variable]
950 | int c=0;
| ^
segment.cpp: In member function 'void Plink::summaryIBD()':
segment.cpp:1529:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1529 | for (int i=0;i<pihat.size();i++)
| ~^~~~~~~~~~~~~
segment.cpp: In member function 'void Plink::indivSegmentSummary()':
segment.cpp:1855:21: warning: variable 'p' set but not used [-Wunused-but-set-variable]
1855 | indivPair p = ic->first;
| ^
segment.cpp: In member function 'void Plink::displaySegmentsLong()':
segment.cpp:2003:12: warning: unused variable 'nseg' [-Wunused-variable]
2003 | int nseg = smap.size();
| ^~~~
segment.cpp: In member function 'void Plink::displaySegmentsBED()':
segment.cpp:2378:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2378 | else if ( par::cnv_col = 1 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2380:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2380 | else if ( par::cnv_col = 2 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2382:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2382 | else if ( par::cnv_col = 3 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2412:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2412 | else if ( par::cnv_col = 1 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2414:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2414 | else if ( par::cnv_col = 2 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2416:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2416 | else if ( par::cnv_col = 3 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2443:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2443 | else if ( par::cnv_col = 1 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2445:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2445 | else if ( par::cnv_col = 2 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2447:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2447 | else if ( par::cnv_col = 3 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2474:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2474 | else if ( par::cnv_col = 1 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2476:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2476 | else if ( par::cnv_col = 2 )
| ~~~~~~~~~~~~~^~~
segment.cpp:2478:34: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
2478 | else if ( par::cnv_col = 3 )
| ~~~~~~~~~~~~~^~~
In file included from model.cpp:15:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from model.cpp:17:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
model.cpp: In member function 'void Model::setMissing(std::vector<bool>&)':
model.cpp:132:23: warning: comparison of integer expressions of different signedness: 'std::vector<bool>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
132 | if ( include.size() != P->n )
| ~~~~~~~~~~~~~~~^~~~~~~
model.cpp: In member function 'void Model::buildDesignMatrix()':
model.cpp:354:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
354 | for (int i=0; i< par::parameter_list.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
model.cpp:367:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
367 | for ( int i = 0 ; i < X.size() ; i++)
| ~~^~~~~~~~~~
model.cpp:374:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
374 | for ( int j = 0 ; j < par::parameter_list.size() ; j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
model.cpp: In member function 'bool Model::checkVIF()':
model.cpp:613:10: warning: unused variable 'maxVIF' [-Wunused-variable]
613 | double maxVIF = 0;
| ^~~~~~
model.cpp: In member function 'double Model::buildQFAM(Individual*)':
model.cpp:849:10: warning: control reaches end of non-void function [-Wreturn-type]
849 | error("Internal problem with QFAM model specification");
| ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from model.h:17,
from model.cpp:14:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Model::buildDesignMatrix()' at model.cpp:379:15:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from homozyg.cpp:17:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Segment&}; _Tp = Segment; _Alloc = std::allocator<Segment>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Segment>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Segment; _Alloc = std::allocator<Segment>]',
inlined from 'void Plink::findHomoWindow(Individual*, std::ofstream&)' at homozyg.cpp:2261:22:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Segment*, std::vector<Segment> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c logistic.cpp
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Segment; _Alloc = std::allocator<Segment>]',
inlined from 'void Plink::findHomoRuns(Individual*, std::ofstream&)' at homozyg.cpp:1918:25:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Segment*, std::vector<Segment> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from segment.cpp:19:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Segment&}; _Tp = Segment; _Alloc = std::allocator<Segment>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Segment>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Segment; _Alloc = std::allocator<Segment>]',
inlined from 'void Plink::findSegments(int, int, vector_t&, std::ofstream&)' at segment.cpp:81:20:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Segment*, std::vector<Segment> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'vector_t Plink::perm_segmentIndividualTest(Perm&, bool, int, int, std::map<Individual*, int>&)' at segment.cpp:491:24:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'vector_t Plink::perm_segmentIndividualTest(Perm&, bool, int, int, std::map<Individual*, int>&)' at segment.cpp:491:24,
inlined from 'void Plink::segmentIndividualTest(Perm&)' at segment.cpp:211:15:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from helper.h:24,
from logistic.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
logistic.cpp: In member function 'virtual void LogisticModel::pruneY()':
logistic.cpp:66:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
66 | for (int i=0; i<Y.size(); i++)
| ~^~~~~~~~~
logistic.cpp: In member function 'double LogisticModel::getPValue()':
logistic.cpp:327:8: warning: unused variable 'okay' [-Wunused-variable]
327 | bool okay = var[testParameter] < 1e-20 || !realnum(var[testParameter]) ? false : all_valid;
| ^~~~
In file included from /usr/include/c++/12/set:60,
from plink.h:22:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<indivPair, double>}; _Key = indivPair; _Val = std::pair<const indivPair, double>; _KeyOfValue = std::_Select1st<std::pair<const indivPair, double> >; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<indivPair, std::pair<const indivPair, double>, std::_Select1st<std::pair<const indivPair, double> >, std::less<indivPair>, std::allocator<std::pair<const indivPair, double> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<indivPair, int>}; _Key = indivPair; _Val = std::pair<const indivPair, double>; _KeyOfValue = std::_Select1st<std::pair<const indivPair, double> >; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<indivPair, std::pair<const indivPair, double>, std::_Select1st<std::pair<const indivPair, double> >, std::less<indivPair>, std::allocator<std::pair<const indivPair, double> > >::const_iterator' changed in GCC 7.1
In file included from /usr/include/c++/12/map:61,
from plink.h:23:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<indivPair, double>}; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<indivPair, double>; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::indivSegmentSummaryCalc(std::map<indivPair, int>&, std::map<indivPair, double>&, bool, bool)' at segment.cpp:1732:24:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<indivPair, double>::const_iterator' {aka 'std::_Rb_tree<indivPair, std::pair<const indivPair, double>, std::_Select1st<std::pair<const indivPair, double> >, std::less<indivPair>, std::allocator<std::pair<const indivPair, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<indivPair, double>}; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<indivPair, double>; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::indivSegmentSummaryCalc(std::map<indivPair, int>&, std::map<indivPair, double>&, bool, bool)' at segment.cpp:1736:28:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<indivPair, double>::const_iterator' {aka 'std::_Rb_tree<indivPair, std::pair<const indivPair, double>, std::_Select1st<std::pair<const indivPair, double> >, std::less<indivPair>, std::allocator<std::pair<const indivPair, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<indivPair, double>}; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<indivPair, double>; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::indivSegmentSummaryCalc(std::map<indivPair, int>&, std::map<indivPair, double>&, bool, bool)' at segment.cpp:1738:31:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<indivPair, double>::const_iterator' {aka 'std::_Rb_tree<indivPair, std::pair<const indivPair, double>, std::_Select1st<std::pair<const indivPair, double> >, std::less<indivPair>, std::allocator<std::pair<const indivPair, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<indivPair, int>}; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<indivPair, int>; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::indivSegmentSummaryCalc(std::map<indivPair, int>&, std::map<indivPair, double>&, bool, bool)' at segment.cpp:1742:28:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<indivPair, double>::const_iterator' {aka 'std::_Rb_tree<indivPair, std::pair<const indivPair, double>, std::_Select1st<std::pair<const indivPair, double> >, std::less<indivPair>, std::allocator<std::pair<const indivPair, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<indivPair, int>}; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<indivPair, int>; _Key = indivPair; _Tp = double; _Compare = std::less<indivPair>; _Alloc = std::allocator<std::pair<const indivPair, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::indivSegmentSummaryCalc(std::map<indivPair, int>&, std::map<indivPair, double>&, bool, bool)' at segment.cpp:1744:31:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<indivPair, double>::const_iterator' {aka 'std::_Rb_tree<indivPair, std::pair<const indivPair, double>, std::_Select1st<std::pair<const indivPair, double> >, std::less<indivPair>, std::allocator<std::pair<const indivPair, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<Segment, int>}; _Key = Segment; _Val = std::pair<const Segment, int>; _KeyOfValue = std::_Select1st<std::pair<const Segment, int> >; _Compare = SegmentSizeCmp; _Alloc = std::allocator<std::pair<const Segment, int> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<Segment, std::pair<const Segment, int>, std::_Select1st<std::pair<const Segment, int> >, SegmentSizeCmp, std::allocator<std::pair<const Segment, int> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<Segment, int>}; _Key = Segment; _Tp = int; _Compare = SegmentSizeCmp; _Alloc = std::allocator<std::pair<const Segment, int> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<Segment, int>; _Key = Segment; _Tp = int; _Compare = SegmentSizeCmp; _Alloc = std::allocator<std::pair<const Segment, int> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::displaySegmentsLong()' at segment.cpp:1993:20:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<Segment, int, SegmentSizeCmp>::const_iterator' {aka 'std::_Rb_tree<Segment, std::pair<const Segment, int>, std::_Select1st<std::pair<const Segment, int> >, SegmentSizeCmp, std::allocator<std::pair<const Segment, int> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from logistic.h:17,
from logistic.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'virtual void LogisticModel::HuberWhite()' at logistic.cpp:386:17:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c glm.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c dcdflib.cpp
dcdflib.cpp: In function 'void cdfbin(int*, double*, double*, double*, double*, double*, double*, int*, double*)':
dcdflib.cpp:1882:36: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
1882 | if(!(*s < 0.0e0 || *which != 3 && *s > *xn)) goto S160;
| ~~~~~~~~~~~~^~~~~~~~~~~
dcdflib.cpp: In function 'void cdfgam(int*, double*, double*, double*, double*, double*, int*, double*)':
dcdflib.cpp:3544:20: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
3544 | if(!(qporq && cum > 1.5e0 || !qporq && ccum > 1.5e0)) goto S280;
| ~~~~~~^~~~~~~~~~~~~~
dcdflib.cpp: In function 'void E0000(int, int*, double*, double*, long unsigned int*, long unsigned int*, double*, double*, double*, double*, double*, double*, double*)':
dcdflib.cpp:6025:23: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
6025 | if(qcond) ftnstop(" SMALL, X, BIG not monotone in INVR");
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
dcdflib.cpp:6088:17: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
6088 | qup = qincr && yy < 0.0e0 || !qincr && yy > 0.0e0;
| ~~~~~~^~~~~~~~~~~~~
dcdflib.cpp:6112:18: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
6112 | qbdd = qincr && yy >= 0.0e0 || !qincr && yy <= 0.0e0;
| ~~~~~~^~~~~~~~~~~~~~
dcdflib.cpp:6153:18: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
6153 | qbdd = qincr && yy <= 0.0e0 || !qincr && yy >= 0.0e0;
| ~~~~~~^~~~~~~~~~~~~~
dcdflib.cpp:6020:56: warning: variable 'qok' set but not used [-Wunused-but-set-variable]
6020 | static unsigned long qbdd,qcond,qdum1,qdum2,qincr,qlim,qok,qup;
| ^~~
dcdflib.cpp: In function 'double dlanor(double*)':
dcdflib.cpp:6401:28: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
6401 | if(xx < 5.0e0) ftnstop(" Argument too small in DLANOR");
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
dcdflib.cpp: In function 'double dstrem(double*)':
dcdflib.cpp:6782:29: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
6782 | if(*z <= 0.0e0) ftnstop("Zero or negative argument in DSTREM");
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
dcdflib.cpp: In function 'void E0001(int, int*, double*, double*, double*, double*, long unsigned int*, long unsigned int*, double*, double*, double*, double*)':
dcdflib.cpp:6996:26: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
6996 | qrzero = fc >= 0.0e0 && fb <= 0.0e0 || fc < 0.0e0 && fb >= 0.0e0;
| ~~~~~~~~~~~~^~~~~~~~~~~~~~
In file included from helper.h:24,
from glm.cpp:19:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from glm.cpp:25:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
glm.cpp: In member function 'vector_t Plink::glmAssoc(bool, Perm&)':
glm.cpp:294:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
294 | for (int h=1; h < whap->current->group.size(); h++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
glm.cpp:344:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
344 | for (int c=0; c<conditioner.size(); c++)
| ~^~~~~~~~~~~~~~~~~~~
glm.cpp:355:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
355 | for (int c=0; c<conditioner.size(); c++)
| ~^~~~~~~~~~~~~~~~~~~
glm.cpp:423:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
423 | for (int c=0; c<conditioner.size(); c++)
| ~^~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c elf.cpp
In file included from /usr/include/c++/12/vector:70,
from linear.h:17,
from glm.cpp:17:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
glm.cpp: In member function 'vector_t Plink::glmAssoc(bool, Perm&)':
glm.cpp:610:35: warning: 'df' may be used uninitialized [-Wmaybe-uninitialized]
610 | double pvalue = chiprobP(chisq,df);
| ~~~~~~~~^~~~~~~~~~
glm.cpp:556:15: note: 'df' was declared here
556 | int df;
| ^~
In file included from helper.h:24,
from elf.cpp:19:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Plink::glmAssoc(bool, Perm&)' at glm.cpp:566:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Plink::glmAssoc(bool, Perm&)' at glm.cpp:579:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Plink::glmAssoc(bool, Perm&)' at glm.cpp:595:16:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
elf.cpp: In function 'void displayScoresRegion(std::ofstream&, RCount&)':
elf.cpp:493:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
493 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
elf.cpp: In member function 'void Plink::permTestRareDistribution(Perm&)':
elf.cpp:609:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
609 | for (int l=0; l< original.size(); l++)
| ~^~~~~~~~~~~~~~~~~
elf.cpp: In member function 'vector_t Plink::testRareDistribution(Perm&, bool, std::map<Range, int2>&)':
elf.cpp:654:16: warning: unused variable 'pthresh' [-Wunused-variable]
654 | const double pthresh = 0.01;
| ^~~~~~~
elf.cpp:655:8: warning: unused variable 'one_sided' [-Wunused-variable]
655 | bool one_sided = true;
| ^~~~~~~~~
elf.cpp:707:7: warning: unused variable 'srange_cnt' [-Wunused-variable]
707 | int srange_cnt = 0;
| ^~~~~~~~~~
elf.cpp:708:8: warning: unused variable 'inRange' [-Wunused-variable]
708 | bool inRange = false;
| ^~~~~~~
elf.cpp: In member function 'void Plink::displayRareRange()':
elf.cpp:895:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
895 | for (int i = 0 ; i < tokens.size() ; i++)
| ~~^~~~~~~~~~~~~~~
elf.cpp:939:26: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
939 | if ( tokens.size() != ncol )
| ~~~~~~~~~~~~~~^~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c dfam.cpp
In file included from dfam.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c fisher.cpp
dfam.cpp: In member function 'std::vector<double> Plink::testSibTDT(bool, bool, Perm&, std::vector<bool>&, std::vector<bool>&)':
dfam.cpp:76:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
76 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
dfam.cpp:86:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
86 | for ( int k=0; k<fam->kid.size(); k++)
| ~^~~~~~~~~~~~~~~~
dfam.cpp:96:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
96 | for ( int k=0; k<fam->kid.size(); k++)
| ~^~~~~~~~~~~~~~~~
dfam.cpp:106:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
106 | for (int c=0; c<klist[k]->person.size(); c++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~
dfam.cpp:157:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Family*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
157 | for (int f=0; f<family.size(); f++)
| ~^~~~~~~~~~~~~~
dfam.cpp:239:25: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
239 | if ( pat1 && (!pat2) ||
| ~~~~~^~~~~~~~~~
dfam.cpp:271:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
271 | for (int c=0; c<family[f]->kid.size(); c++)
| ~^~~~~~~~~~~~~~~~~~~~~~
dfam.cpp:378:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
378 | for (int c=0; c<family[f]->kid.size(); c++)
| ~^~~~~~~~~~~~~~~~~~~~~~
dfam.cpp:218:16: warning: unused variable 'informative' [-Wunused-variable]
218 | bool informative = false;
| ^~~~~~~~~~~
dfam.cpp:504:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
504 | for (int c=0; c<klist[k]->person.size(); c++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~
dfam.cpp:151:11: warning: unused variable 'totalInformative' [-Wunused-variable]
151 | int totalInformative = 0;
| ^~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from elf.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from helper.h:24,
from fisher.cpp:17:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
fisher.cpp: In function 'void fexact(int*, int*, double*, int*, double*, double*, double*, double*, double*, int*)':
fisher.cpp:261:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
261 | prterr(1, "NROW must be less than or equal to LDTABL.");
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp:267:21: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
267 | prterr(2, "All elements of TABLE must be positive.");
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp:272:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
272 | prterr(3, "All elements of TABLE are zero.\n"
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
273 | "PRT and PRE are set to missing values.");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp: In function 'void f2xact(int*, int*, double*, int*, double*, double*, double*, double*, double*, double*, int*, int*, int*, int*, int*, int*, int*, int*, double*, int*, int*, double*, double*, double*, int*, int*, double*)':
fisher.cpp:448:15: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
448 | prterr(1, "NROW must be less than or equal to LDTABL.");
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp:450:15: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
450 | prterr(4, "NCOL must be at least 2");
| ^~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp:449:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
449 | if (*ncol <= 1)
| ^~
fisher.cpp:453:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
453 | for (i = 1; i <= *ldkey << 1; ++i) {
| ^~~
fisher.cpp:501:25: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
501 | prterr(2, "All elements of TABLE must be positive.");
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp:508:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
508 | prterr(3, "All elements of TABLE are zero.\n"
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
509 | "PRT and PRE are set to missing values.");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp:559:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
559 | prterr(5, "The hash table key cannot be computed because "
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
560 | "the largest key\n"
| ~~~~~~~~~~~~~~~~~~~
561 | "is larger than the largest representable int.\n"
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
562 | "The algorithm cannot proceed.\n"
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
563 | "Reduce the workspace size, or use `exact = FALSE'.");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp:750:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
750 | prterr(6, "LDKEY is too small for this problem.\n"
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
751 | "Try increasing the size of the workspace.");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp: In function 'void f5xact(double*, const double*, int*, int*, int*, int*, double*, int*, int*, int*, int*, int*, int*, int*, int*)':
fisher.cpp:1538:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
1538 | prterr(6, "LDKEY is too small for this problem.\n"
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1539 | "Try increasing the size of the workspace.");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp:1554:23: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
1554 | prterr(7, "LDSTP is too small for this problem.\n"
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1555 | "Try increasing the size of the workspace.");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp:1596:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
1596 | prterr(7, "LDSTP is too small for this problem.\n"
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1597 | "Try increasing the size of the workspace.");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
fisher.cpp: In function 'int iwork(int, int*, int, int)':
fisher.cpp:2001:18: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
2001 | prterr(40, "Out of workspace.");
| ^~~~~~~~~~~~~~~~~~~
fisher.cpp: In function 'void isort(int*, int*)':
fisher.cpp:2078:18: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
2078 | prterr(20, "This should never occur.");
| ^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c linput.cpp
elf.cpp: In member function 'bool RCount::addSNP(int)':
elf.cpp:374:10: warning: 'wt' may be used uninitialized [-Wmaybe-uninitialized]
374 | double wt;
| ^~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'RCount::RCount(Plink*, std::map<Range, int2>*)' at elf.cpp:39:16,
inlined from 'vector_t Plink::testRareDistribution(Perm&, bool, std::map<Range, int2>&)' at elf.cpp:700:25:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Plink::testRareDistribution(Perm&, bool, std::map<Range, int2>&)' at elf.cpp:793:23:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from linput.cpp:25:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
linput.cpp: In member function 'void Plink::readDataLongFormat()':
linput.cpp:68:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
68 | for (int l=0; l< locus.size(); l++)
| ~^~~~~~~~~~~~~~
linput.cpp:128:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
128 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
linput.cpp:136:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<CSNP*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
136 | for (int l=0; l<SNP.size(); l++)
| ~^~~~~~~~~~~
linput.cpp:146:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
146 | for (int l=0; l< locus.size(); l++)
| ~^~~~~~~~~~~~~~
linput.cpp:164:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
164 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
linput.cpp:200:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
200 | for (int i=0; i<include.size(); i++)
| ~^~~~~~~~~~~~~~~
linput.cpp:209:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
209 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'RCount::RCount(Plink*, std::map<Range, int2>*)' at elf.cpp:39:16,
inlined from 'vector_t Plink::testRareDistribution(Perm&, bool, std::map<Range, int2>&)' at elf.cpp:700:25,
inlined from 'void Plink::permTestRareDistribution(Perm&)' at elf.cpp:572:60:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Plink::testRareDistribution(Perm&, bool, std::map<Range, int2>&)' at elf.cpp:793:23,
inlined from 'void Plink::permTestRareDistribution(Perm&)' at elf.cpp:572:60:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/12/set:60,
from plink.h:22:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Val = std::pair<const int2, double>; _KeyOfValue = std::_Select1st<std::pair<const int2, double> >; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/map:61,
from plink.h:23:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int2, double>; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::displayRareRange()' at elf.cpp:964:18:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int2, double>::const_iterator' {aka 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int2, double>; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::displayRareRange()' at elf.cpp:965:18:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int2, double>::const_iterator' {aka 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c sockets.cpp
elf.cpp: In member function 'void Plink::elfBaseline()':
elf.cpp:1142:18: warning: 'p_gcnt' may be used uninitialized [-Wmaybe-uninitialized]
1142 | ++(*p_gcnt);
| ~^~~~~~~~
elf.cpp:1112:13: note: 'p_gcnt' was declared here
1112 | int * p_gcnt;
| ^~~~~~
elf.cpp:1147:22: warning: 'p_cnt' may be used uninitialized [-Wmaybe-uninitialized]
1147 | ++(*p_cnt);
| ~^~~~~~~
elf.cpp:1111:13: note: 'p_cnt' was declared here
1111 | int * p_cnt;
| ^~~~~
In file included from helper.h:24,
from sockets.cpp:18:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
sockets.cpp: In function 'std::vector<std::__cxx11::basic_string<char> > socketConnection(Plink*, std::string, int, std::string)':
sockets.cpp:78:24: warning: unused variable 'out_buf' [-Wunused-variable]
78 | char out_buf[BUF_SIZE+1]; // Output buffer for GET request
| ^~~~~~~
sockets.cpp:79:24: warning: unused variable 'in_buf' [-Wunused-variable]
79 | char in_buf[BUF_SIZE+1]; // Input buffer for response
| ^~~~~~
sockets.cpp:81:24: warning: unused variable 'i' [-Wunused-variable]
81 | unsigned int i; // Loop counter
| ^
sockets.cpp:119:7: warning: unused variable 'echoStringLen' [-Wunused-variable]
119 | int echoStringLen = 100;
| ^~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c lookup.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c proxy.cpp
In file included from helper.h:24,
from lookup.cpp:18:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
lookup.cpp: In member function 'void Plink::lookup()':
lookup.cpp:206:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
206 | for (int i=25; i<tokens.size()-1; i++)
| ~^~~~~~~~~~~~~~~~
lookup.cpp:203:15: warning: unused variable 'totalSNPs' [-Wunused-variable]
203 | int totalSNPs = 0;
| ^~~~~~~~~
lookup.cpp:204:15: warning: unused variable 'gcount' [-Wunused-variable]
204 | int gcount = 0;
| ^~~~~~
lookup.cpp:272:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
272 | for (int i=25; i<tokens.size()-1; i++)
| ~^~~~~~~~~~~~~~~~
lookup.cpp:289:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
289 | for (int i=25; i<tokens.size()-1; i++)
| ~^~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c pdriver.cpp
In file included from proxy.cpp:21:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from proxy.cpp:24:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
proxy.cpp: In member function 'void Plink::performProxyTests(int)':
proxy.cpp:314:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
314 | for (int i=1; i<proxyHaplotypePlusSNP.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
proxy.cpp:332:29: warning: comparison of integer expressions of different signedness: 'std::set<int>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
332 | if ( added.size() >= par::proxy_snp_filter )
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
proxy.cpp:854:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
854 | for (int l0=0; l0< proxyHaplotypePlusSNP.size(); l0++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
proxy.cpp:1332:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1332 | for (int l0=0; l0< proxyHaplotypePlusSNP.size(); l0++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
proxy.cpp:1401:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1401 | for (int c1 = 0; c1 < collection.size() ; c1++ )
| ~~~^~~~~~~~~~~~~~~~~~~
proxy.cpp:1448:19: warning: unused variable 't1' [-Wunused-variable]
1448 | int t1=0;
| ^~
proxy.cpp:169:10: warning: unused variable 's' [-Wunused-variable]
169 | CSNP * s = SNP[l];
| ^
In file included from pdriver.cpp:16:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from pdriver.cpp:18:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
pdriver.cpp: In member function 'void Plink::proxyWrapper()':
pdriver.cpp:266:11: warning: unused variable 'similar' [-Wunused-variable]
266 | int similar = 0;
| ^~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c haploQTL.cpp
In file included from /usr/include/c++/12/vector:70,
from options.h:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from haploQTL.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from haploQTL.cpp:25:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
haploQTL.cpp: In member function 'void HaploPhase::haplotypicQTL(std::map<int, int>&, int, bool)':
haploQTL.cpp:83:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
83 | for (int z = 0 ; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/set:60,
from proxy.cpp:17:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Val = std::pair<const int2, double>; _KeyOfValue = std::_Select1st<std::pair<const int2, double> >; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
haploQTL.cpp:145:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
145 | for (int z = 0 ; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c haplohelper.cpp
In file included from /usr/include/c++/12/vector:65:
In member function 'void std::_Bit_iterator_base::_M_incr(std::ptrdiff_t)',
inlined from 'std::_Bit_iterator::iterator& std::_Bit_iterator::operator+=(std::iterator<std::random_access_iterator_tag, bool>::difference_type)' at /usr/include/c++/12/bits/stl_bvector.h:328:14,
inlined from 'std::_Bit_iterator::iterator std::operator+(const _Bit_iterator::iterator&, iterator<random_access_iterator_tag, bool>::difference_type)' at /usr/include/c++/12/bits/stl_bvector.h:350:16,
inlined from 'std::_Bit_iterator::reference std::_Bit_iterator::operator[](std::iterator<std::random_access_iterator_tag, bool>::difference_type) const' at /usr/include/c++/12/bits/stl_bvector.h:343:24,
inlined from 'std::vector<bool, _Alloc>::reference std::vector<bool, _Alloc>::operator[](size_type) [with _Alloc = std::allocator<bool>]' at /usr/include/c++/12/bits/stl_bvector.h:1036:23,
inlined from 'void Plink::performProxyTests(int)' at proxy.cpp:1191:9:
/usr/include/c++/12/bits/stl_bvector.h:200:11: warning: 'ref' may be used uninitialized [-Wmaybe-uninitialized]
200 | __n = __n % int(_S_word_bit);
| ~~~~^~~~~~~~~~~~~~~~~~~~~~~~
proxy.cpp: In member function 'void Plink::performProxyTests(int)':
proxy.cpp:422:7: note: 'ref' was declared here
422 | int ref;
| ^~~
In file included from /usr/include/c++/12/map:61,
from plink.h:23,
from options.h:19:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int2, double>; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::performProxyTests(int)' at proxy.cpp:371:23:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int2, double>::const_iterator' {aka 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::performProxyTests(int)' at proxy.cpp:973:27:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::performProxyTests(int)' at proxy.cpp:974:29:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::performProxyTests(int)' at proxy.cpp:1519:24:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::performProxyTests(int)' at proxy.cpp:1520:26:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c haplowindow.cpp
In file included from haplohelper.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from haplohelper.cpp:25:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
In file included from haplohelper.cpp:27:
genogroup.h: In member function 'bool MultiLocusGenotype::operator<(const MultiLocusGenotype&) const':
genogroup.h:27:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
27 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
genogroup.h: In member function 'bool MultiLocusGenotype::operator==(const MultiLocusGenotype&) const':
genogroup.h:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
34 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
haplohelper.cpp: In member function 'void HaploPhase::imputeAllHaplotypes()':
haplohelper.cpp:104:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
104 | for (int l=0; l<new_one[i].size(); l++)
| ~^~~~~~~~~~~~~~~~~~
haplohelper.cpp:134:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
134 | for (int l=0; l < actual_map.size(); l++)
| ~~^~~~~~~~~~~~~~~~~~~
haplohelper.cpp: In member function 'std::vector<std::__cxx11::basic_string<char> > HaploPhase::returnHaplotypes(std::vector<int>&)':
haplohelper.cpp:297:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
297 | for (int h=0; h<hap.size(); h++)
| ~^~~~~~~~~~~
haplohelper.cpp: In member function 'void HaploPhase::setTestHaplotype(std::string)':
haplohelper.cpp:337:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
337 | for (int h=0; h<hap.size(); h++)
| ~^~~~~~~~~~~
haplohelper.cpp: In member function 'void HaploPhase::reportPhase()':
haplohelper.cpp:396:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
396 | for (int z = 0; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
haplohelper.cpp:413:36: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
413 | for (int z2=0; z2<hap1[i].size(); z2++)
| ~~^~~~~~~~~~~~~~~
haplohelper.cpp: In member function 'void HaploPhase::reportPhaseWideFormat()':
haplohelper.cpp:487:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
487 | for (int z = 0; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
haplohelper.cpp: In member function 'vector_t HaploPhase::imputeGenotype(int, int)':
haplohelper.cpp:655:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
655 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplohelper.cpp: In member function 'double HaploPhase::imputeHaplotypes(int, bool&, bool&)':
haplohelper.cpp:754:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
754 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplohelper.cpp:802:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
802 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplohelper.cpp: In member function 'double HaploPhase::rsq_internal(boolvec_t&, boolvec_t&, boolvec_t&, boolvec_t&)':
haplohelper.cpp:850:20: warning: comparison of integer expressions of different signedness: 'std::vector<bool>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
850 | if (mask1.size() != ns ||mask2.size() != ns ||alleles1.size() != ns
| ~~~~~~~~~~~~~^~~~~
haplohelper.cpp:850:41: warning: comparison of integer expressions of different signedness: 'std::vector<bool>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
850 | if (mask1.size() != ns ||mask2.size() != ns ||alleles1.size() != ns
| ~~~~~~~~~~~~~^~~~~
haplohelper.cpp:850:65: warning: comparison of integer expressions of different signedness: 'std::vector<bool>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
850 | if (mask1.size() != ns ||mask2.size() != ns ||alleles1.size() != ns
| ~~~~~~~~~~~~~~~~^~~~~
haplohelper.cpp:851:25: warning: comparison of integer expressions of different signedness: 'std::vector<bool>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
851 | ||alleles2.size() != ns )
| ~~~~~~~~~~~~~~~~^~~~~
haplohelper.cpp: In member function 'double HaploPhase::freq(boolvec_t&, boolvec_t&)':
haplohelper.cpp:957:20: warning: comparison of integer expressions of different signedness: 'std::vector<bool>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
957 | if (mask1.size() != ns ||alleles1.size() != ns )
| ~~~~~~~~~~~~~^~~~~
haplohelper.cpp:957:44: warning: comparison of integer expressions of different signedness: 'std::vector<bool>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
957 | if (mask1.size() != ns ||alleles1.size() != ns )
| ~~~~~~~~~~~~~~~~^~~~~
haplohelper.cpp: In member function 'void HaploPhase::trackThisSegment()':
haplohelper.cpp:1225:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1225 | for (int z = 0; z < hap1[p1].size(); z++)
| ~~^~~~~~~~~~~~~~~~~
haplohelper.cpp:1251:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1251 | for (int z1 = 0; z1 < hap1[p1].size(); z1++)
| ~~~^~~~~~~~~~~~~~~~~
haplohelper.cpp:1252:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1252 | for (int z2 = 0; z2 < hap1[p2].size(); z2++)
| ~~~^~~~~~~~~~~~~~~~~
haplohelper.cpp:1250:11: warning: unused variable 'j' [-Wunused-variable]
1250 | int j=0;
| ^
haplohelper.cpp: In member function 'void HaploPhase::calculateEmpiricalVariance(std::set<int>&)':
haplohelper.cpp:1419:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1419 | for( int z = 0; z < pp[i].size(); z++ )
| ~~^~~~~~~~~~~~~~
haplohelper.cpp:1477:37: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1477 | for( int z = 0; z < pp[i].size(); z++ )
| ~~^~~~~~~~~~~~~~
haplohelper.cpp: In member function 'void HaploPhase::verboseDisplayWindows(int, bool)':
haplohelper.cpp:1666:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1666 | for (int z = 0; z < windows[w]->hap1[r].size(); z++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from haplowindow.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from haplowindow.cpp:27:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
In file included from haplowindow.cpp:28:
genogroup.h: In member function 'bool MultiLocusGenotype::operator<(const MultiLocusGenotype&) const':
genogroup.h:27:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
27 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
genogroup.h: In member function 'bool MultiLocusGenotype::operator==(const MultiLocusGenotype&) const':
genogroup.h:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
34 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
haplowindow.cpp: In function 'void verboseDisplayWindows2(HaploPhase*, int, bool)':
haplowindow.cpp:48:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
48 | for (int z = 0; z < haplo->windows[w]->hap1[r].size(); z++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
haplowindow.cpp: In member function 'void HaploWindow::enumerateHaplotypes(intvec_t&)':
haplowindow.cpp:183:11: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
183 | while (h<nh)
| ~^~~
haplowindow.cpp: In member function 'void HaploWindow::prunePhase(int, double)':
haplowindow.cpp:558:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
558 | for (int z=0; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
haplowindow.cpp:574:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
574 | for (int z=0; z < new_pp.size(); z++)
| ~~^~~~~~~~~~~~~~~
haplowindow.cpp: In member function 'void HaploWindow::performEM()':
haplowindow.cpp:683:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
683 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplowindow.cpp:691:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
691 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplowindow.cpp:751:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
751 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplowindow.cpp:791:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
791 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplowindow.cpp:798:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
798 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplowindow.cpp:868:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
868 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplowindow.cpp:872:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
872 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
haplowindow.cpp: In member function 'void HaploWindow::reportPhase()':
haplowindow.cpp:949:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
949 | for (int z = 0; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
haplowindow.cpp:966:36: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
966 | for (int z2=0; z2<hap1[i].size(); z2++)
| ~~^~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c genogroup.cpp
In file included from /usr/include/c++/12/vector:70,
from haplowindow.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploWindow::tallyUnambiguousCounts()' at haplowindow.cpp:611:12:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploWindow::prunePhase(int, double)' at haplowindow.cpp:563:20:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from genogroup.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from genogroup.cpp:24:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
In file included from genogroup.cpp:28:
genogroup.h: In member function 'bool MultiLocusGenotype::operator<(const MultiLocusGenotype&) const':
genogroup.h:27:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
27 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
genogroup.h: In member function 'bool MultiLocusGenotype::operator==(const MultiLocusGenotype&) const':
genogroup.h:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
34 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from haplohelper.cpp:19:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::enumerateAllPhases()' at haplohelper.cpp:254:20:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::enumerateAllPhases()' at haplohelper.cpp:270:30:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c nonfounderphasing.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c clumpld.cpp
In file included from nonfounderphasing.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from helper.h:24,
from clumpld.h:21,
from clumpld.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from nonfounderphasing.cpp:27:
genogroup.h: In member function 'bool MultiLocusGenotype::operator<(const MultiLocusGenotype&) const':
genogroup.h:27:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
27 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
genogroup.h: In member function 'bool MultiLocusGenotype::operator==(const MultiLocusGenotype&) const':
genogroup.h:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
34 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
In file included from nonfounderphasing.cpp:28:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
In file included from clumpld.cpp:21:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
clumpld.cpp: In member function 'std::vector<ResultTrio> clump_LD::read_assoc_file(std::string)':
clumpld.cpp:92:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
92 | for (int f=0; f<filename.size(); f++)
| ~^~~~~~~~~~~~~~~~
clumpld.cpp:128:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
128 | for (int i=0; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
clumpld.cpp:137:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
137 | for ( int f=0; f<tok_annot.size(); f++)
| ~^~~~~~~~~~~~~~~~~
clumpld.cpp:173:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
173 | if ( tokens.size() <= snp_column ||
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~
clumpld.cpp:174:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
174 | tokens.size() <= pval_column )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~
nonfounderphasing.cpp: In member function 'void HaploPhase::phaseAndScoreNonfounder(int)':
nonfounderphasing.cpp:668:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
668 | for (int z=0; z < pp[i].size(); z++)
| ~~^~~~~~~~~~~~~~
nonfounderphasing.cpp:360:7: warning: unused variable 'pcnt' [-Wunused-variable]
360 | int pcnt=1;
| ^~~~
clumpld.cpp:201:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
201 | for (int f=0; f<annot_field.size(); f++)
| ~^~~~~~~~~~~~~~~~~~~
clumpld.cpp:204:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
204 | if ( f < annot_field.size() - 1 )
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
nonfounderphasing.cpp: In member function 'void HaploPhase::transmissionCount(int, std::map<FamilyTransmissions, double>&)':
nonfounderphasing.cpp:715:14: warning: unused variable 'posterior' [-Wunused-variable]
715 | double posterior = ip->second;
| ^~~~~~~~~
clumpld.cpp: In member function 'void clump_LD::clump()':
clumpld.cpp:368:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<ResultTrio>::size_type' {aka 'unsigned int'} [-Wsign-compare]
368 | for (int i = 0; i < sp.size(); i++)
| ~~^~~~~~~~~~~
clumpld.cpp:480:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
480 | if( l1 < P->locus.size()-1 )
| ~~~^~~~~~~~~~~~~~~~~~~
clumpld.cpp:520:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
520 | for (int f=1; f<=filename.size(); f++)
| ~^~~~~~~~~~~~~~~~~
clumpld.cpp:611:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
611 | for (int f=1; f<=filename.size(); f++)
| ~^~~~~~~~~~~~~~~~~
clumpld.cpp:1097:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::map<int2, double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1097 | if( j < grouped_snps.size()-1)
| ~~^~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c genoerr.cpp
In file included from /usr/include/c++/12/vector:70,
from nonfounderphasing.cpp:19:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/map:60,
from nonfounderphasing.cpp:20:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<FamilyTransmissions, double>}; _Key = FamilyTransmissions; _Val = std::pair<const FamilyTransmissions, double>; _KeyOfValue = std::_Select1st<std::pair<const FamilyTransmissions, double> >; _Compare = std::less<FamilyTransmissions>; _Alloc = std::allocator<std::pair<const FamilyTransmissions, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<FamilyTransmissions, std::pair<const FamilyTransmissions, double>, std::_Select1st<std::pair<const FamilyTransmissions, double> >, std::less<FamilyTransmissions>, std::allocator<std::pair<const FamilyTransmissions, double> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/map:61:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<FamilyTransmissions, double>}; _Key = FamilyTransmissions; _Tp = double; _Compare = std::less<FamilyTransmissions>; _Alloc = std::allocator<std::pair<const FamilyTransmissions, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<FamilyTransmissions, double>; _Key = FamilyTransmissions; _Tp = double; _Compare = std::less<FamilyTransmissions>; _Alloc = std::allocator<std::pair<const FamilyTransmissions, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void HaploPhase::phaseAndScoreNonfounder(int)' at nonfounderphasing.cpp:563:20:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<FamilyTransmissions, double>::const_iterator' {aka 'std::_Rb_tree<FamilyTransmissions, std::pair<const FamilyTransmissions, double>, std::_Select1st<std::pair<const FamilyTransmissions, double> >, std::less<FamilyTransmissions>, std::allocator<std::pair<const FamilyTransmissions, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void HaploPhase::phaseAndScoreNonfounder(int)' at nonfounderphasing.cpp:651:23:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from genoerr.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from genoerr.cpp:27:
genogroup.h: In member function 'bool MultiLocusGenotype::operator<(const MultiLocusGenotype&) const':
genogroup.h:27:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
27 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
genogroup.h: In member function 'bool MultiLocusGenotype::operator==(const MultiLocusGenotype&) const':
genogroup.h:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
34 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
In file included from genoerr.cpp:28:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
genoerr.cpp: In member function 'void HaploPhase::queryThisGenotype(int, int, int, vector_t&)':
genoerr.cpp:157:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
157 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
genoerr.cpp:189:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
189 | for( int a = 0; a < posshap1.size(); a++ )
| ~~^~~~~~~~~~~~~~~~~
genoerr.cpp:190:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
190 | for( int b = 0; b < posshap2.size(); b++ )
| ~~^~~~~~~~~~~~~~~~~
genoerr.cpp:225:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
225 | for (int z = 0; z < new_hap1.size(); z++)
| ~~^~~~~~~~~~~~~~~~~
genoerr.cpp:315:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
315 | for (int z = 0; z < hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~
genoerr.cpp:328:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
328 | for (int z2=0; z2<hap1[i].size(); z2++)
| ~~^~~~~~~~~~~~~~~
genoerr.cpp:347:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
347 | for (int z = 0; z < new_hap1.size(); z++)
| ~~^~~~~~~~~~~~~~~~~
genoerr.cpp:358:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
358 | for (int z2=0; z2<new_hap1.size(); z2++)
| ~~^~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c em.cpp
In file included from /usr/include/c++/12/algorithm:61,
from clumpld.cpp:18:
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
In file included from /usr/include/c++/12/bits/stl_algo.h:60:
/usr/include/c++/12/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >; _Distance = int; _Tp = ResultTrio; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from genoerr.cpp:19:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from clumpld.h:17:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ResultTrio&}; _Tp = ResultTrio; _Alloc = std::allocator<ResultTrio>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<ResultTrio>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/map:60,
from clumpld.h:18:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::pair<std::_Rb_tree_node_base*, std::_Rb_tree_node_base*> std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(const_iterator, const key_type&) [with _Key = ClumpPair; _Val = std::pair<const ClumpPair, ClumpResults>; _KeyOfValue = std::_Select1st<std::pair<const ClumpPair, ClumpResults> >; _Compare = std::less<ClumpPair>; _Alloc = std::allocator<std::pair<const ClumpPair, ClumpResults> >]':
/usr/include/c++/12/bits/stl_tree.h:2209:5: note: parameter passing for argument of type 'std::_Rb_tree<ClumpPair, std::pair<const ClumpPair, ClumpResults>, std::_Select1st<std::pair<const ClumpPair, ClumpResults> >, std::less<ClumpPair>, std::allocator<std::pair<const ClumpPair, ClumpResults> > >::const_iterator' changed in GCC 7.1
2209 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from em.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<ClumpPair, ClumpResults>}; _Key = ClumpPair; _Val = std::pair<const ClumpPair, ClumpResults>; _KeyOfValue = std::_Select1st<std::pair<const ClumpPair, ClumpResults> >; _Compare = std::less<ClumpPair>; _Alloc = std::allocator<std::pair<const ClumpPair, ClumpResults> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<ClumpPair, std::pair<const ClumpPair, ClumpResults>, std::_Select1st<std::pair<const ClumpPair, ClumpResults> >, std::less<ClumpPair>, std::allocator<std::pair<const ClumpPair, ClumpResults> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from em.cpp:27:
genogroup.h: In member function 'bool MultiLocusGenotype::operator<(const MultiLocusGenotype&) const':
genogroup.h:27:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
27 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
genogroup.h: In member function 'bool MultiLocusGenotype::operator==(const MultiLocusGenotype&) const':
genogroup.h:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
34 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
In file included from em.cpp:28:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
em.cpp: In member function 'void HaploPhase::performEM_original()':
em.cpp:89:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
89 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
em.cpp:97:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
97 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
em.cpp:106:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
106 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
em.cpp:128:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
128 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
em.cpp:132:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
132 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
em.cpp:162:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
162 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
em.cpp:166:36: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
166 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Val = std::pair<const int2, double>; _KeyOfValue = std::_Select1st<std::pair<const int2, double> >; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator' changed in GCC 7.1
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'void HaploPhase::queryThisGenotype(int, int, int, vector_t&)' at genoerr.cpp:192:21:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__heap_select(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1625:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
1625 | __heap_select(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1625:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1625:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
1908 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function 'void std::__partial_sort(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1916:27:
/usr/include/c++/12/bits/stl_algo.h:1900:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
1900 | std::__heap_select(__first, __middle, __last, __comp);
| ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/map:61:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<ClumpPair, ClumpResults>}; _Key = ClumpPair; _Tp = ClumpResults; _Compare = std::less<ClumpPair>; _Alloc = std::allocator<std::pair<const ClumpPair, ClumpResults> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<ClumpPair, ClumpResults>; _Key = ClumpPair; _Tp = ClumpResults; _Compare = std::less<ClumpPair>; _Alloc = std::allocator<std::pair<const ClumpPair, ClumpResults> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'std::vector<ResultTrio> clump_LD::read_assoc_file(std::string)' at clumpld.cpp:209:24:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<ClumpPair, ClumpResults>::const_iterator' {aka 'std::_Rb_tree<ClumpPair, std::pair<const ClumpPair, ClumpResults>, std::_Select1st<std::pair<const ClumpPair, ClumpResults> >, std::less<ClumpPair>, std::allocator<std::pair<const ClumpPair, ClumpResults> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ResultTrio; _Alloc = std::allocator<ResultTrio>]',
inlined from 'std::vector<ResultTrio> clump_LD::read_assoc_file(std::string)' at clumpld.cpp:210:16:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'std::vector<ResultTrio> clump_LD::read_assoc_file(std::string)' at clumpld.cpp:219:7:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<ResultTrio*, vector<ResultTrio> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'std::vector<ResultTrio> clump_LD::read_assoc_file(std::string)' at clumpld.cpp:219:7:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ResultTrio*, std::vector<ResultTrio> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c impute.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c metaem.cpp
In file included from impute.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from impute.cpp:27:
genogroup.h: In member function 'bool MultiLocusGenotype::operator<(const MultiLocusGenotype&) const':
genogroup.h:27:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
27 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
genogroup.h: In member function 'bool MultiLocusGenotype::operator==(const MultiLocusGenotype&) const':
genogroup.h:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
34 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
In file included from impute.cpp:28:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
impute.cpp: In constructor 'probabilisticGenotype::probabilisticGenotype()':
impute.cpp:40:23: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
40 | phased = genotype = false;
| ~~~~~~~~~^~~~~~~
impute.cpp: In member function 'void HaploPhase::updateForImputation()':
impute.cpp:105:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
105 | for (int z=0; z<hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~
impute.cpp:144:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
144 | for (int z=0; z< currentWindow->hap1[i].size(); z++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
impute.cpp:161:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
161 | for (int z=0; z< currentWindow->pp[i].size(); z++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
impute.cpp: In member function 'void HaploPhase::mainImputation()':
impute.cpp:263:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
263 | for ( int z = 0 ; z < currentWindow->hap1[i].size(); z++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
impute.cpp:313:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<probabilisticGenotype>::size_type' {aka 'unsigned int'} [-Wsign-compare]
313 | for (int s=0; s < g.size(); s++)
| ~~^~~~~~~~~~
In file included from metaem.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int2, double>; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void clump_LD::clump()' at clumpld.cpp:546:25:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int2, double>::const_iterator' {aka 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int2, double>; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void clump_LD::clump()' at clumpld.cpp:633:25:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int2, double>::const_iterator' {aka 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from metaem.cpp:27:
genogroup.h: In member function 'bool MultiLocusGenotype::operator<(const MultiLocusGenotype&) const':
genogroup.h:27:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
27 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
genogroup.h: In member function 'bool MultiLocusGenotype::operator==(const MultiLocusGenotype&) const':
genogroup.h:34:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
34 | for (int i=0; i<g.size(); i++)
| ~^~~~~~~~~
In file included from metaem.cpp:28:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
metaem.cpp: In member function 'void HaploPhase::enumeratePhasedWindows(int)':
metaem.cpp:239:19: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
239 | while (h<nperm)
| ~^~~~~~
In file included from /usr/include/c++/12/map:60,
from impute.cpp:20:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Val = std::pair<const int2, double>; _KeyOfValue = std::_Select1st<std::pair<const int2, double> >; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/map:61:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, double>}; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int2, double>; _Key = int2; _Tp = double; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void HaploPhase::updateForImputation()' at impute.cpp:130:21:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int2, double>::const_iterator' {aka 'std::_Rb_tree<int2, std::pair<const int2, double>, std::_Select1st<std::pair<const int2, double> >, std::less<int2>, std::allocator<std::pair<const int2, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c profile.cpp
In file included from profile.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c nlist.cpp
profile.cpp: In member function 'void Plink::scoreIndividuals()':
profile.cpp:303:12: warning: unused variable 'OLD_assoc_glm_without_main_snp' [-Wunused-variable]
303 | bool OLD_assoc_glm_without_main_snp = par::assoc_glm_without_main_snp;
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
profile.cpp:304:12: warning: unused variable 'OLD_clist' [-Wunused-variable]
304 | bool OLD_clist = par::clist;
| ^~~~~~~~~
profile.cpp:350:14: warning: unused variable 'statistic' [-Wunused-variable]
350 | double statistic = valid ? model->getStatistic() : 0;
| ^~~~~~~~~
profile.cpp:351:14: warning: unused variable 'pvalue' [-Wunused-variable]
351 | double pvalue = pval[ pval.size()-1 ];
| ^~~~~~
profile.cpp:352:14: warning: unused variable 'beta' [-Wunused-variable]
352 | double beta = b[ b.size()-1 ];
| ^~~~
profile.cpp:390:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
390 | for (int s=0; s<snpset.size(); s++)
| ~^~~~~~~~~~~~~~
profile.cpp:402:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
402 | for (int s=0; s<snpset.size(); s++)
| ~^~~~~~~~~~~~~~
profile.cpp:421:13: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
421 | if ( qcnt == qlabel.size() )
| ~~~~~^~~~~~~~~~~~~~~~
profile.cpp: In member function 'void Plink::calculateProfile(std::map<int, double>&, std::map<int, bool>&, vector_t&, matrix_t&, std::vector<int>&, std::vector<int>&)':
profile.cpp:480:16: warning: unused variable 'a1' [-Wunused-variable]
480 | bool a1 = i2->second;
| ^~
profile.cpp:525:16: warning: variable 'sawNamedAllele' set but not used [-Wunused-but-set-variable]
525 | bool sawNamedAllele = false;
| ^~~~~~~~~~~~~~
profile.cpp:629:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
629 | for (int j=0; j<snpset.size(); j++)
| ~^~~~~~~~~~~~~~
profile.cpp: In function 'void scoreRanges(int, std::vector<int>&, std::map<int, std::set<Range*> >&, std::map<Range*, int>&, std::ofstream&)':
profile.cpp:667:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
667 | for (int l=0; l<f.size(); l++)
| ~^~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c whap.cpp
In file included from helper.h:24,
from nlist.h:21,
from nlist.cpp:17:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
nlist.cpp: In member function 'std::vector<int> NList::deparseNumberList(std::string)':
nlist.cpp:38:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
38 | for (int i=0; i<tok.size(); i++)
| ~^~~~~~~~~~~
nlist.cpp: In member function 'std::vector<int> NList::deparseStringList(std::string, std::map<std::__cxx11::basic_string<char>, int>*)':
nlist.cpp:83:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
83 | for (int i=0; i<tok.size(); i++)
| ~^~~~~~~~~~~
nlist.cpp: In member function 'std::vector<int> NList::expandNumberList(std::vector<int>&)':
nlist.cpp:107:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
107 | for (int i=0; i<nlist.size(); i++)
| ~^~~~~~~~~~~~~
nlist.cpp:124:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
124 | for (int i=0; i<nlist.size(); i++)
| ~^~~~~~~~~~~~~
nlist.cpp:151:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
151 | for (int i=0; i<n.size(); i++)
| ~^~~~~~~~~
nlist.cpp:160:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
160 | for (int i=0; i<n.size(); i++)
| ~^~~~~~~~~
nlist.cpp: In member function 'std::vector<std::__cxx11::basic_string<char> > NList::tokenize(std::string)':
nlist.cpp:189:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} [-Wsign-compare]
189 | for (int i=0; i<s.length(); i++)
| ~^~~~~~~~~~~
nlist.cpp:239:39: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} [-Wsign-compare]
239 | if ( s[i]== range_char && i == s.length()-1 )
| ~~^~~~~~~~~~~~~~~
nlist.cpp:253:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} [-Wsign-compare]
253 | else if ( i == s.length()-1 )
| ~~^~~~~~~~~~~~~~~
In file included from helper.h:24,
from whap.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from whap.cpp:25:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
whap.cpp: In member function 'vector_t Plink::conditionalHaplotypeTest(bool, Perm&)':
whap.cpp:334:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
334 | for (int g = 0; g < nullModel.group.size(); g++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
whap.cpp:393:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
393 | for (int g=0; g<subnullModel.group.size(); g++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~
whap.cpp:454:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
454 | for (int h=0; h<coeff1.size(); h++)
| ~^~~~~~~~~~~~~~
whap.cpp:456:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
456 | for (int h=0; h<coeff0.size(); h++)
| ~^~~~~~~~~~~~~~
whap.cpp:508:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
508 | for ( int g=0; g<nullModel.group.size(); g++ )
| ~^~~~~~~~~~~~~~~~~~~~~~~
whap.cpp:511:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
511 | for ( int g2=0; g2<alternateModel.group.size(); g2++ )
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
whap.cpp:619:14: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
619 | if ( g < nullModel.group.size() - 1 )
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
whap.cpp:670:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
670 | for (int s=0; s < conditioner.size(); s++)
| ~~^~~~~~~~~~~~~~~~~~~~
whap.cpp:793:12: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
793 | if ( p1 != coeff1.size() || p0 != coeff0.size() )
| ~~~^~~~~~~~~~~~~~~~
whap.cpp:793:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'unsigned int'} [-Wsign-compare]
793 | if ( p1 != coeff1.size() || p0 != coeff0.size() )
| ~~~^~~~~~~~~~~~~~~~
whap.cpp: In member function 'void Chap::build(ChapModel&)':
whap.cpp:962:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
962 | for (int h=0; h<tok.size(); h++)
| ~^~~~~~~~~~~
whap.cpp:986:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
986 | for (int i=0; i<tok.size(); i++)
| ~^~~~~~~~~~~
whap.cpp:1015:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1015 | for (int i=0; i< tok.size(); i++)
| ~^~~~~~~~~~~~
whap.cpp:1048:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1048 | for ( int i = 0 ; i < tok.size() ; i++ )
| ~~^~~~~~~~~~~~
whap.cpp:1118:27: warning: comparison of integer expressions of different signedness: 'std::map<std::__cxx11::basic_string<char>, int>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1118 | if ( mapping.size() != H->ns + H->nh )
| ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~
whap.cpp:1129:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1129 | for (int i=0; i< lst.size(); i++)
| ~^~~~~~~~~~~~
whap.cpp:1142:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1142 | for (int i=0; i<lst.size(); i++)
| ~^~~~~~~~~~~
whap.cpp:1162:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1162 | for (int i=0; i<lst.size(); i++)
| ~^~~~~~~~~~~
whap.cpp:1197:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1197 | for (int i=0; i<snplist.size(); i++)
| ~^~~~~~~~~~~~~~~
whap.cpp:1231:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1231 | for (int i=0; i<lst.size(); i++)
| ~^~~~~~~~~~~
whap.cpp:1290:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1290 | for (int g=0; g< model.group.size(); g++)
| ~^~~~~~~~~~~~~~~~~~~~
whap.cpp:1326:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1326 | for (int c=0; c < P->conditioner.size(); c++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~
whap.cpp:1334:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1334 | for (int l=0; l<lst.size(); l++)
| ~^~~~~~~~~~~
whap.cpp: In member function 'void Chap::setSNPList(std::vector<int>&, ChapModel&)':
whap.cpp:1389:17: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1389 | for (int l=0;l<snplist.size(); l++)
| ~^~~~~~~~~~~~~~~
whap.cpp: In function 'void displayHaploGroups(std::ofstream&, ChapModel&, HaploPhase*)':
whap.cpp:1425:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1425 | for (int h=0; h < m.group.size(); h++)
| ~~^~~~~~~~~~~~~~~~
whap.cpp:1434:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::set<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1434 | if ( cnt>0 && cnt2 < m.group[h].size() )
| ~~~~~^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from profile.cpp:19:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double2&}; _Tp = double2; _Alloc = std::allocator<double2>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double2>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::calculateProfile(std::map<int, double>&, std::map<int, bool>&, vector_t&, matrix_t&, std::vector<int>&, std::vector<int>&)' at profile.cpp:440:17:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/map:60,
from profile.cpp:20:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<int, double>}; _Key = int; _Val = std::pair<const int, double>; _KeyOfValue = std::_Select1st<std::pair<const int, double> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c simul.cpp
In file included from /usr/include/c++/12/map:61:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int, double>}; _Key = int; _Tp = double; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int, double>; _Key = int; _Tp = double; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::scoreIndividuals()' at profile.cpp:76:19:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int, double>::const_iterator' {aka 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double2; _Alloc = std::allocator<double2>]',
inlined from 'void Plink::scoreIndividuals()' at profile.cpp:91:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double2*, std::vector<double2> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int, double>}; _Key = int; _Tp = double; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int, double>; _Key = int; _Tp = double; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::scoreIndividuals()' at profile.cpp:192:21:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int, double>::const_iterator' {aka 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int, double>}; _Key = int; _Tp = double; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int, double>; _Key = int; _Tp = double; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::scoreIndividuals()' at profile.cpp:198:21:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int, double>::const_iterator' {aka 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from helper.h:24,
from simul.cpp:16:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
simul.cpp: In function 'vector_t instanceSNP(SimParameters&)':
simul.cpp:172:10: warning: unused variable 'gh_11_12' [-Wunused-variable]
172 | double gh_11_12 = h11*h12;
| ^~~~~~~~
simul.cpp: In member function 'void Plink::simulateSNPs()':
simul.cpp:635:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<SimParameters>::size_type' {aka 'unsigned int'} [-Wsign-compare]
635 | for (int s=0; s<sp.size(); s++)
| ~^~~~~~~~~~
simul.cpp:679:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<SimParameters>::size_type' {aka 'unsigned int'} [-Wsign-compare]
679 | for (int s=0; s<sp.size(); s++)
| ~^~~~~~~~~~
simul.cpp: In member function 'void Plink::simulateSNPs_QT()':
simul.cpp:1146:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<SimParametersQT>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1146 | for (int s=0; s<sp.size(); s++)
| ~^~~~~~~~~~
simul.cpp:1211:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<SimParametersQT>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1211 | for (int s=0; s<sp.size(); s++)
| ~^~~~~~~~~~
simul.cpp:1358:30: warning: unused variable 'cumU' [-Wunused-variable]
1358 | double cumA = 0, cumU = 0;
| ^~~~
In file included from /usr/include/c++/12/vector:70,
from whap.h:18,
from whap.cpp:19:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from plink.h:21,
from simul.cpp:15:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const SimParameters&}; _Tp = SimParameters; _Alloc = std::allocator<SimParameters>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<SimParameters>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const SimParametersQT&}; _Tp = SimParametersQT; _Alloc = std::allocator<SimParametersQT>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<SimParametersQT>::iterator' changed in GCC 7.1
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c gvar.cpp
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = SimParameters; _Alloc = std::allocator<SimParameters>]',
inlined from 'void Plink::simulateSNPs()' at simul.cpp:619:19:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SimParameters*, std::vector<SimParameters> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::simulateSNPs()' at simul.cpp:857:18:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::simulateSNPs()' at simul.cpp:863:18:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from helper.h:24,
from gvar.cpp:15:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
gvar.cpp: In member function 'void Plink::readGenericVariantData()':
gvar.cpp:125:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
125 | for (int l=0; l<locus.size(); l++)
| ~^~~~~~~~~~~~~
gvar.cpp:192:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
192 | for (int l=0; l<locus.size(); l++)
| ~^~~~~~~~~~~~~
gvar.cpp:247:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
247 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
gvar.cpp:298:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
298 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
gvar.cpp:381:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
381 | for (int i=0; i<include.size(); i++)
| ~^~~~~~~~~~~~~~~
gvar.cpp:395:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
395 | for (int i=0; i<include.size(); i++)
| ~^~~~~~~~~~~~~~~
gvar.cpp:403:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
403 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
gvar.cpp:471:11: warning: unused variable 'ip' [-Wunused-variable]
471 | int ip = peri->second;
| ^~
gvar.cpp:414:8: warning: unused variable 'fatal' [-Wunused-variable]
414 | bool fatal = false;
| ^~~~~
gvar.cpp:549:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Locus*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
549 | for (int l=0; l<locus.size(); l++)
| ~^~~~~~~~~~~~~
gvar.cpp:553:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<CSNP*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
553 | for (int l=0; l<SNP.size(); l++)
| ~^~~~~~~~~~~
gvar.cpp:556:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
556 | for (int i=0; i<sample.size(); i++)
| ~^~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'vector_t Plink::conditionalHaplotypeTest(bool, Perm&)' at whap.cpp:304:31:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'vector_t Plink::conditionalHaplotypeTest(bool, Perm&)' at whap.cpp:408:30:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'vector_t Plink::conditionalHaplotypeTest(bool, Perm&)' at whap.cpp:413:30:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = SimParametersQT; _Alloc = std::allocator<SimParametersQT>]',
inlined from 'void Plink::simulateSNPs_QT()' at simul.cpp:1130:19:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SimParametersQT*, std::vector<SimParametersQT> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::simulateSNPs_QT()' at simul.cpp:1363:18:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c cnv.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c step.cpp
In file included from helper.h:24,
from cnv.cpp:23:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
cnv.cpp: In member function 'void Plink::readCNVList()':
cnv.cpp:247:15: warning: unused variable 'p1' [-Wunused-variable]
247 | int p1,p2;
| ^~
cnv.cpp:247:18: warning: unused variable 'p2' [-Wunused-variable]
247 | int p1,p2;
| ^~
cnv.cpp:332:19: warning: unused variable 'p1' [-Wunused-variable]
332 | int p1,p2;
| ^~
cnv.cpp:332:22: warning: unused variable 'p2' [-Wunused-variable]
332 | int p1,p2;
| ^~
In file included from helper.h:24,
from step.cpp:18:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
cnv.cpp:678:43: warning: variable 'is' set but not used [-Wunused-but-set-variable]
678 | map<Range,string>::iterator is = idescription.find(*ir);
| ^~
cnv.cpp:815:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Segment>::size_type' {aka 'unsigned int'} [-Wsign-compare]
815 | for (int s1=0; s1<segment.size(); s1++)
| ~~^~~~~~~~~~~~~~~
cnv.cpp:825:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Segment>::size_type' {aka 'unsigned int'} [-Wsign-compare]
825 | for (int s2=s1+1; s2<segment.size(); s2++)
| ~~^~~~~~~~~~~~~~~
cnv.cpp:916:9: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
916 | if ( par::cnv_freq_include )
| ^~
cnv.cpp:922:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
922 | isection.clear();
| ^~~~~~~~
cnv.cpp:1031:32: warning: variable 'i2' set but not used [-Wunused-but-set-variable]
1031 | set<Range>::iterator i2 = isection.begin();
| ^~
cnv.cpp:1103:43: warning: variable 'il' set but not used [-Wunused-but-set-variable]
1103 | map<indivPair,double>::iterator il = segmentLength.find(t);
| ^~
cnv.cpp:1414:11: warning: unused variable 'nseg' [-Wunused-variable]
1414 | int nseg = 1;
| ^~~~
cnv.cpp:412:7: warning: unused variable 'nseg' [-Wunused-variable]
412 | int nseg=0;
| ^~~~
cnv.cpp: In function 'double weighted_count_intersects(std::set<Range>&, int, int, int)':
cnv.cpp:1749:7: warning: unused variable 'cnt' [-Wunused-variable]
1749 | int cnt = 0;
| ^~~
cnv.cpp: In member function 'void Plink::positionPermuteSegments()':
cnv.cpp:2013:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::map<int, CInfo>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2013 | for (int c = 0 ; c < scaffold.size(); c++)
| ~~^~~~~~~~~~~~~~~~~
cnv.cpp: In member function 'vector_t Plink::glmCNVBurdenModel(Perm&, bool)':
cnv.cpp:2098:13: warning: statement has no effect [-Wunused-value]
2098 | noCovar == true;
| ~~~~~~~~^~~~~~~
cnv.cpp:2202:17: warning: variable 'p' set but not used [-Wunused-but-set-variable]
2202 | indivPair p = ic->first;
| ^
cnv.cpp:2288:10: warning: unused variable 'statistic' [-Wunused-variable]
2288 | double statistic = valid ? model->getStatistic() : 0;
| ^~~~~~~~~
cnv.cpp:2289:10: warning: unused variable 'pvalue' [-Wunused-variable]
2289 | double pvalue = pval[ pval.size()-1 ];
| ^~~~~~
cnv.cpp:2290:10: warning: unused variable 'beta' [-Wunused-variable]
2290 | double beta = b[ b.size()-1 ];
| ^~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c greport.cpp
In file included from /usr/include/c++/12/vector:70,
from gvar.h:17,
from gvar.cpp:14:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'Model* analyseModel(Plink*, Variant*, int, bool, bool)' at gvar.cpp:1071:27:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'Model* analyseModel(Plink*, Variant*, int, bool, bool)' at gvar.cpp:1072:27:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'Model* analyseModel(Plink*, Variant*, int, bool, bool)' at gvar.cpp:1076:27:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]' at /usr/include/c++/12/bits/stl_vector.h:1294:21,
inlined from 'Model* analyseModel(Plink*, Variant*, int, bool, bool)' at gvar.cpp:1080:27:
/usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from greport.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
greport.cpp: In member function 'void Plink::displayGeneReport()':
greport.cpp:78:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
78 | for (int i=0; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
greport.cpp:147:26: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
147 | if ( tokens.size() <= chr_column ||
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~
greport.cpp:148:26: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
148 | tokens.size() <= bp_column )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~
greport.cpp:156:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
156 | if ( tokens.size() <= pval_column )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~
greport.cpp:169:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
169 | if ( tokens.size() <= snp_column )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~
greport.cpp:240:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
240 | for (int l=0; l< ari->second.size(); l+=2)
| ~^~~~~~~~~~~~~~~~~~~~
greport.cpp:125:7: warning: unused variable 'cnt' [-Wunused-variable]
125 | int cnt = 0;
| ^~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c flip.cpp
In file included from helper.h:24,
from flip.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from cnv.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Segment&}; _Tp = Segment; _Alloc = std::allocator<Segment>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<Segment>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c qualscores.cpp
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from helper.h:24,
from qualscores.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
qualscores.cpp: In member function 'void Plink::filterQualGenotypes()':
qualscores.cpp:122:12: warning: unused variable 'nfound' [-Wunused-variable]
122 | long int nfound = 0;
| ^~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Segment; _Alloc = std::allocator<Segment>]',
inlined from 'void Plink::readCNVList()' at cnv.cpp:599:21:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Segment*, std::vector<Segment> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::readCNVList()' at cnv.cpp:616:25:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::readCNVList()' at cnv.cpp:617:33:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c cnvqt.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c cfamily.cpp
In file included from helper.h:24,
from cnvqt.cpp:22:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from cfamily.cpp:18:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
cfamily.cpp: In function 'int mCount(Individual*, Individual*)':
cfamily.cpp:205:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
205 | for (int i = 0 ; i < inds.size() ; i++)
| ~~^~~~~~~~~~~~~
cfamily.cpp:221:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
221 | for (int j = 0 ; j < inds[i]->kids.size() ; j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~
cfamily.cpp:237:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
237 | for (int i = 0 ; i < inds.size() ; i++)
| ~~^~~~~~~~~~~~~
cfamily.cpp: In function 'bool isAncestorOf(Individual*, Individual*)':
cfamily.cpp:263:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
263 | for (int i = 0 ; i < inds.size() ; i++)
| ~~^~~~~~~~~~~~~
cfamily.cpp:276:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
276 | for (int j = 0 ; j < inds[i]->kids.size() ; j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~
cfamily.cpp:288:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
288 | for (int i = 0 ; i < inds.size() ; i++)
| ~~^~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from cnvqt.cpp:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
523 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Plink::testCNVwithQT(double, int, int, vector_t&, vector_t&, vector_t&)' at cnvqt.cpp:244:12:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Plink::testCNVwithQT(double, int, int, vector_t&, vector_t&, vector_t&)' at cnvqt.cpp:245:12:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Plink::testCNVwithQT(double, int, int, vector_t&, vector_t&, vector_t&)' at cnvqt.cpp:246:15:
/usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1032 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c setscreen.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c idhelp.cpp
In file included from setscreen.cpp:21:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
setscreen.cpp: In member function 'void Plink::setAssocSummary()':
setscreen.cpp:80:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
80 | for (int i=0; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
setscreen.cpp:110:26: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
110 | if ( tokens.size() != cols )
| ~~~~~~~~~~~~~~^~~~~~~
setscreen.cpp:188:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
188 | for ( int j = 0; j < pS->snpset.size(); j++ )
| ~~^~~~~~~~~~~~~~~~~~~
setscreen.cpp:196:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
196 | for (int i=0; i < snpset[j].size(); i++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from idhelp.cpp:18:
idhelp.h: In member function 'void IDGroup::display()':
idhelp.h:196:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
196 | for (int k=0; k<values.size(); k++)
| ~^~~~~~~~~~~~~~
In file included from idhelp.cpp:19:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
idhelp.cpp: In member function 'std::map<IDField*, std::set<IDValue> > IDHelper::parseQuery(std::string)':
idhelp.cpp:40:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
40 | for ( int i = 0 ; i < ids.size() ; i++)
| ~~^~~~~~~~~~~~
idhelp.cpp:63:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
63 | for (int i=0; i<flist.size(); i++)
| ~^~~~~~~~~~~~~
idhelp.cpp: In member function 'bool IDHelper::matchIndividual(IDGroup*, std::map<IDField*, std::set<IDValue> >&)':
idhelp.cpp:136:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
136 | for (int g=0; g<group->values.size(); g++)
| ~^~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:169:14: warning: comparison of integer expressions of different signedness: 'int' and 'std::map<IDField*, std::set<IDValue> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
169 | if ( found != matchTemplate.size() )
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:128:8: warning: unused variable 'match' [-Wunused-variable]
128 | bool match = true;
| ^~~~~
idhelp.cpp: In member function 'void IDHelper::setJointValues(IDGroup*)':
idhelp.cpp:210:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<IDField*> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
210 | for (int j = 0 ; j < jointField.size(); j++ )
| ~~^~~~~~~~~~~~~~~~~~~
idhelp.cpp:221:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
221 | for (int j = 0 ; j < group->values.size(); j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:296:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<bool>::size_type' {aka 'unsigned int'} [-Wsign-compare]
296 | for ( int i = 0 ; i < mask.size() ; i++)
| ~~^~~~~~~~~~~~~
idhelp.cpp:214:26: warning: unused variable 'jo' [-Wunused-variable]
214 | vector<IDField*> & jo = jointOrder[j];
| ^~
idhelp.cpp: In member function 'std::set<IDGroup*> IDHelper::findAllIndividuals(std::map<IDField*, std::set<IDValue> >&)':
idhelp.cpp:346:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDGroup*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
346 | for ( int g = 0 ; g < idgroup.size(); g++ )
| ~~^~~~~~~~~~~~~~~~
idhelp.cpp: In member function 'void IDHelper::idHelp()':
idhelp.cpp:502:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
502 | if ( ++p == tokens.size() )
| ~~~~^~~~~~~~~~~~~~~~
idhelp.cpp:510:14: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
510 | if ( p < tokens.size() )
| ~~^~~~~~~~~~~~~~~
idhelp.cpp:542:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
542 | for (int i = 0 ; i < ids.size() ; i++)
| ~~^~~~~~~~~~~~
idhelp.cpp:547:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
547 | for (int i = 0 ; i < ids.size() ; i++)
| ~~^~~~~~~~~~~~
idhelp.cpp:553:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
553 | for (int i = 0 ; i < ids.size() ; i++)
| ~~^~~~~~~~~~~~
idhelp.cpp:529:24: warning: unused variable 'seenJoint' [-Wunused-variable]
529 | bool seenJoint = true;
| ^~~~~~~~~
idhelp.cpp:584:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
584 | for (int i = 0 ; i < ids.size() ; i++)
| ~~^~~~~~~~~~~~
idhelp.cpp:594:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
594 | for (int i = 0 ; i < ids.size() ; i++)
| ~~^~~~~~~~~~~~
idhelp.cpp:678:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
678 | if ( ++p == tokens.size() )
| ~~~~^~~~~~~~~~~~~~~~
idhelp.cpp:727:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDFile>::size_type' {aka 'unsigned int'} [-Wsign-compare]
727 | for ( int f = 0 ; f < files.size() ; f++ )
| ~~^~~~~~~~~~~~~~
idhelp.cpp:742:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<IDField*> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
742 | for (int j = 0 ; j < jointField.size(); j++ )
| ~~^~~~~~~~~~~~~~~~~~~
idhelp.cpp:745:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDFile>::size_type' {aka 'unsigned int'} [-Wsign-compare]
745 | for ( int f = 0 ; f < files.size() ; f++ )
| ~~^~~~~~~~~~~~~~
idhelp.cpp:747:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDField*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
747 | for ( int j = 0; j < files[f].fields.size(); j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:757:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDField*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
757 | for ( int j = 0; j < files[f].fields.size(); j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:744:23: warning: unused variable 'jf' [-Wunused-variable]
744 | set<IDField*> & jf = jointField[j];
| ^~
idhelp.cpp:772:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::set<IDField*> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
772 | for (int j = 0 ; j < jointField.size(); j++ )
| ~~^~~~~~~~~~~~~~~~~~~
idhelp.cpp:790:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDFile>::size_type' {aka 'unsigned int'} [-Wsign-compare]
790 | for ( int f = 0 ; f < files.size() ; f++ )
| ~~^~~~~~~~~~~~~~
idhelp.cpp:794:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDField*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
794 | for ( int j = 0 ; j < files[f].fields.size(); j++ )
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:808:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDField*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
808 | for ( int j = 0 ; j < files[f].fields.size(); j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:836:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
836 | for (int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/bits/stl_algo.h:60,
from /usr/include/c++/12/algorithm:61,
from setscreen.cpp:18:
/usr/include/c++/12/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SortedResult*, vector<SortedResult> >; _Distance = int; _Tp = SortedResult; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SortedResult*, vector<SortedResult> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
1802 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
idhelp.cpp:888:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
888 | if ( tokens.size() != file->uniqFieldCount )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:894:38: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
894 | int mx = tokens.size() > file->uniqFieldCount ? tokens.size() : file->uniqFieldCount ;
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:903:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
903 | if ( j < tokens.size() )
| ~~^~~~~~~~~~~~~~~
idhelp.cpp:922:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDField*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
922 | for ( int j = 0 ; j < files[f].fields.size(); j++ )
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:950:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
950 | for ( int i=0; i<atoken.size(); i++)
| ~^~~~~~~~~~~~~~
idhelp.cpp:975:44: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
975 | if ( v->value.size() + 3 > myField->width )
| ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~
idhelp.cpp:1000:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDGroup*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1000 | for ( int g = 0 ; g < idgroup.size(); g++ )
| ~~^~~~~~~~~~~~~~~~
idhelp.cpp:1003:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1003 | for (int j = 0 ; j < group->values.size(); j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1013:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDGroup*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1013 | for ( int g = 0 ; g < idgroup.size(); g++ )
| ~~^~~~~~~~~~~~~~~~
idhelp.cpp:1015:17: warning: unused variable 'group' [-Wunused-variable]
1015 | IDGroup * group = idgroup[g];
| ^~~~~
idhelp.cpp:1025:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDGroup*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1025 | for ( int g = 0 ; g < idgroup.size(); g++ )
| ~~^~~~~~~~~~~~~~~~
idhelp.cpp:1028:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1028 | for (int j = 0 ; j < group->values.size(); j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1031:21: warning: unused variable 'v' [-Wunused-variable]
1031 | IDValue & v = *(group->values[j]);
| ^
idhelp.cpp:1070:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDGroup*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1070 | for ( int g = 0 ; g < idgroup.size(); g++ )
| ~~^~~~~~~~~~~~~~~~
idhelp.cpp:1085:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1085 | for (int j = 0 ; j < group->values.size(); j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1110:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1110 | for ( int j = 0; j < group->values.size(); j++ )
| ~~^~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1128:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1128 | for ( int k = 0; k < (*i0)->values.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1183:46: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1183 | for (int z=0; z<group->values.size(); z++)
| ~^~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1189:46: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1189 | for (int z=0; z<(*i0)->values.size(); z++)
| ~^~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1236:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDGroup*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1236 | for ( int g = 0 ; g < idgroup.size(); g++ )
| ~~^~~~~~~~~~~~~~~~
idhelp.cpp:1242:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1242 | for (int j = 0 ; j < group->values.size(); j++)
| ~~^~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1245:21: warning: unused variable 'v' [-Wunused-variable]
1245 | IDValue & v = *(group->values[j]);
| ^
idhelp.cpp:1346:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1346 | for (int i=0; i<ids.size(); i++)
| ~^~~~~~~~~~~
idhelp.cpp:1424:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDGroup*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1424 | for ( int g = 0 ; g < idgroup.size(); g++ )
| ~~^~~~~~~~~~~~~~~~
idhelp.cpp:1440:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1440 | for ( int j = 0; j < group->values.size(); j++ )
| ~~^~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp: In member function 'void IDHelper::idReplace()':
idhelp.cpp:1551:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1551 | for ( int i=0; i<targetFields.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1631:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1631 | for (int i=0; i<ids.size(); i++)
| ~^~~~~~~~~~~
idhelp.cpp:1648:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1648 | for (int f = 0 ; f < targetFields.size(); f++)
| ~~^~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1649:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1649 | for (int i = 0 ; i < tokens.size(); i++)
| ~~^~~~~~~~~~~~~~~
idhelp.cpp:1654:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1654 | for (int i=0; i<rep_field.size(); i++)
| ~^~~~~~~~~~~~~~~~~
idhelp.cpp:1675:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1675 | for (int i=0; i<rep_field.size(); i++)
| ~^~~~~~~~~~~~~~~~~
idhelp.cpp:1684:26: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
1684 | if ( tokens.size() <= maxfield )
| ~~~~~~~~~~~~~~^~~~~~~~~~~
idhelp.cpp:1692:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1692 | for (int i=0; i<rep_field.size(); i++)
| ~^~~~~~~~~~~~~~~~~
idhelp.cpp:1710:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1710 | for (int i=0; i<rep_field.size(); i++)
| ~^~~~~~~~~~~~~~~~~
idhelp.cpp:1733:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1733 | for (int f=0; f<targetFields.size(); f++)
| ~^~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1735:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1735 | for (int i = 0 ; i < thisGroup->values.size(); i++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1770:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1770 | for (int i=0; i<rep_field.size(); i++)
| ~^~~~~~~~~~~~~~~~~
idhelp.cpp:1784:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1784 | for (int f=0; f<targetFields.size(); f++)
| ~^~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1801:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1801 | for (int i = 0 ; i < tokens.size() ; i++ )
| ~~^~~~~~~~~~~~~~~
idhelp.cpp: In member function 'void IDHelper::idMatch()':
idhelp.cpp:1856:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1856 | for (int s=0; s< par::idhelp_match_string.size(); s+=2)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1903:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1903 | for (int i=0; i<fstr.size(); i++)
| ~^~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SortedResult*, vector<SortedResult> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
1908 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
/usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
idhelp.cpp:1937:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1937 | for (int k=0; k<h.size(); k++)
| ~^~~~~~~~~
idhelp.cpp:1957:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1957 | for (int f = 0; f<fieldNames.size(); f++)
| ~^~~~~~~~~~~~~~~~~~
idhelp.cpp:1964:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1964 | for (int i=0; i<header.size(); i++)
| ~^~~~~~~~~~~~~~
idhelp.cpp:1986:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1986 | for (int f = 0 ; f < fieldNames.size(); f++)
| ~~^~~~~~~~~~~~~~~~~~~
idhelp.cpp:2018:29: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and '__gnu_cxx::__alloc_traits<std::allocator<int>, int>::value_type' {aka 'int'} [-Wsign-compare]
2018 | if ( tok.size() != tableSize[t] )
idhelp.cpp:2024:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2024 | for (int k=0; k<tok.size(); k++)
| ~^~~~~~~~~~~
idhelp.cpp:2030:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2030 | if ( maxF >= tok.size() )
| ~~~~~^~~~~~~~~~~~~
idhelp.cpp:2034:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2034 | for (int f=0; f<fieldCodes.size(); f++)
| ~^~~~~~~~~~~~~~~~~~
idhelp.cpp:2070:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2070 | for (int v=0; v<g->values.size(); v++)
| ~^~~~~~~~~~~~~~~~~
idhelp.cpp:1889:12: warning: unused variable 'jointQuery' [-Wunused-variable]
1889 | bool jointQuery = id.find("+") != string::npos;
| ^~~~~~~~~~
idhelp.cpp:2167:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2167 | for (int k=0; k<headers.size(); k++)
| ~^~~~~~~~~~~~~~~
idhelp.cpp:2168:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2168 | for (int j=0; j<headers[k].size(); j++)
| ~^~~~~~~~~~~~~~~~~~
idhelp.cpp:2201:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
2201 | for (int k = 0 ; k < thisLine.size() ; k++ )
| ~~^~~~~~~~~~~~~~~~~
idhelp.cpp: In member function 'void IDHelper::idDump()':
idhelp.cpp:2229:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDGroup*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2229 | for ( int g = 0 ; g < idgroup.size(); g++ )
| ~~^~~~~~~~~~~~~~~~
idhelp.cpp:2234:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<IDValue*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
2234 | for (int j = 0 ; j < group->values.size(); j++ )
| ~~^~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from options.h:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const SortedResult&}; _Tp = SortedResult; _Alloc = std::allocator<SortedResult>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<SortedResult>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = SortedResult; _Alloc = std::allocator<SortedResult>]',
inlined from 'void Plink::setAssocSummary()' at setscreen.cpp:205:19:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SortedResult*, vector<SortedResult> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<SortedResult*, vector<SortedResult> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Plink::setAssocSummary()' at setscreen.cpp:227:11:
/usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
1937 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1938 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1939 | __comp);
| ~~~~~~~
In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SortedResult*, vector<SortedResult> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]',
inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<SortedResult*, vector<SortedResult> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1940:31,
inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<SortedResult*, vector<SortedResult> >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18,
inlined from 'void Plink::setAssocSummary()' at setscreen.cpp:227:11:
/usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<SortedResult*, std::vector<SortedResult> >' changed in GCC 7.1
1854 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c tag.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c hapglm.cpp
In file included from helper.h:24,
from tag.cpp:24:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from helper.h:24,
from hapglm.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from hapglm.cpp:25:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
In file included from /usr/include/c++/12/vector:70,
from whap.h:18,
from hapglm.cpp:19:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'vector_t Plink::glmHaplotypeTest(bool, Perm&)' at hapglm.cpp:245:24:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c lookup2.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c blox.cpp
In file included from helper.h:24,
from lookup2.cpp:18:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
lookup2.cpp: In member function 'void Plink::lookup2()':
lookup2.cpp:163:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
163 | for (int i = 0 ; i < ids.size(); i++)
| ~~^~~~~~~~~~~~
lookup2.cpp:203:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
203 | for (int i = 0 ; i < ids.size(); i++)
| ~~^~~~~~~~~~~~
lookup2.cpp:280:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
280 | for (int i = 0 ; i < ids.size(); i++)
| ~~^~~~~~~~~~~~
lookup2.cpp:325:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
325 | for (int t = 0 ; t < tokens.size() ; t++)
| ~~^~~~~~~~~~~~~~~
In file included from blox.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from blox.cpp:23:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
blox.cpp: In member function 'std::map<Range, std::vector<int> > Plink::mkBlks(int, int)':
blox.cpp:147:11: warning: unused variable 'nsnps' [-Wunused-variable]
147 | int nsnps = toPosition - fromPosition + 1;
| ^~~~~
blox.cpp:156:11: warning: unused variable 'numStrong' [-Wunused-variable]
156 | int numStrong = 0;
| ^~~~~~~~~
blox.cpp:157:11: warning: unused variable 'numRec' [-Wunused-variable]
157 | int numRec = 0;
| ^~~~~~
blox.cpp:158:11: warning: unused variable 'numInGroup' [-Wunused-variable]
158 | int numInGroup = 0;
| ^~~~~~~~~~
blox.cpp:226:11: warning: unused variable 'cnt' [-Wunused-variable]
226 | int cnt = 0;
| ^~~
blox.cpp:418:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
418 | for (int k=0; k<b.size(); k++)
| ~^~~~~~~~~
blox.cpp:427:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
427 | for (int k=0; k<b.size(); k++)
| ~^~~~~~~~~
blox.cpp:123:16: warning: unused variable 'fourGameteCutoff' [-Wunused-variable]
123 | const double fourGameteCutoff = 0.01;
| ^~~~~~~~~~~~~~~~
blox.cpp: In member function 'void PairwiseLinkage::calculateCI()':
blox.cpp:469:7: warning: unused variable 'total_chroms' [-Wunused-variable]
469 | int total_chroms = knownAA + knownAB + knownBA + knownBB + 2*unknownDH;
| ^~~~~~~~~~~~
blox.cpp:569:41: warning: 'pB2' may be used uninitialized [-Wmaybe-uninitialized]
569 | if ( pB1>0 ) loglike1 += knownBA * log( pB1 );
| ~~~^~~~~~~
blox.cpp:489:22: note: 'pB2' was declared here
489 | double pA1,pA2,pB1,pB2;
| ^~~
blox.cpp:505:10: warning: 'pB1' may be used uninitialized [-Wmaybe-uninitialized]
505 | double p1 = pA1 + pB1;
| ^~
blox.cpp:489:18: note: 'pB1' was declared here
489 | double pA1,pA2,pB1,pB2;
| ^~~
blox.cpp:503:10: warning: 'pA2' may be used uninitialized [-Wmaybe-uninitialized]
503 | double pA = pA1 + pA2;
| ^~
blox.cpp:489:14: note: 'pA2' was declared here
489 | double pA1,pA2,pB1,pB2;
| ^~~
blox.cpp:510:10: warning: 'pA1' may be used uninitialized [-Wmaybe-uninitialized]
510 | double D = pA1 - (pA*p1);
| ^
blox.cpp:489:10: note: 'pA1' was declared here
489 | double pA1,pA2,pB1,pB2;
| ^~~
In file included from /usr/include/c++/12/set:60,
from plink.h:22,
from options.h:19:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, DPrime>}; _Key = int2; _Val = std::pair<const int2, DPrime>; _KeyOfValue = std::_Select1st<std::pair<const int2, DPrime> >; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, DPrime> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<int2, std::pair<const int2, DPrime>, std::_Select1st<std::pair<const int2, DPrime> >, std::less<int2>, std::allocator<std::pair<const int2, DPrime> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/map:61,
from plink.h:23:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int2, DPrime>}; _Key = int2; _Tp = DPrime; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, DPrime> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int2, DPrime>; _Key = int2; _Tp = DPrime; _Compare = std::less<int2>; _Alloc = std::allocator<std::pair<const int2, DPrime> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'std::map<Range, std::vector<int> > Plink::mkBlks(int, int)' at blox.cpp:200:22:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int2, DPrime>::const_iterator' {aka 'std::_Rb_tree<int2, std::pair<const int2, DPrime>, std::_Select1st<std::pair<const int2, DPrime> >, std::less<int2>, std::allocator<std::pair<const int2, DPrime> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c zed.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c dosage.cpp
In file included from helper.h:24,
from zed.cpp:19:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from dosage.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
In file included from dosage.cpp:23:
phase.h: In member function 'void HaploPhase::reset()':
phase.h:252:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::vector<bool> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
252 | for (int i=0; i<hap.size(); i++)
| ~^~~~~~~~~~~
dosage.cpp: In member function 'void Plink::processDosageFile()':
dosage.cpp:110:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double2>::size_type' {aka 'unsigned int'} [-Wsign-compare]
110 | for ( int q = 0 ; q < qthresh.size() ; q++)
| ~~^~~~~~~~~~~~~~~~
dosage.cpp:513:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
513 | for (int i=0; i<dosageFilename_all.size(); i++)
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~
dosage.cpp:548:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<ZInput*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
548 | for (int f = 0 ; f < vzin.size() ; f++ )
| ~~^~~~~~~~~~~~~
dosage.cpp:581:27: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
581 | if ( tok.size() < firstCol )
| ~~~~~~~~~~~^~~~~~~~~~
dosage.cpp:601:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
601 | for (int i=firstCol; i<tok.size(); i+= 2 )
| ~^~~~~~~~~~~
dosage.cpp:695:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<Individual*>::size_type' {aka 'unsigned int'} [-Wsign-compare]
695 | for (int i = 0; i < personMap[f].size(); i++)
| ~~^~~~~~~~~~~~~~~~~~~~~
dosage.cpp:750:31: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and '__gnu_cxx::__alloc_traits<std::allocator<int>, int>::value_type' {aka 'int'} [-Wsign-compare]
750 | if ( tok.size() != expected[f] )
dosage.cpp:989:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
989 | for (int q=0; q<inQ.size(); q++)
| ~^~~~~~~~~~~
dosage.cpp:1170:18: warning: unused variable 'statistic' [-Wunused-variable]
1170 | double statistic = valid ? model->getStatistic() : 0;
| ^~~~~~~~~
dosage.cpp:1252:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
1252 | if ( o->second != dosageFilename_all.size() )
| ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
dosage.cpp:1310:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double2>::size_type' {aka 'unsigned int'} [-Wsign-compare]
1310 | if ( ++qq == qthresh.size() )
| ~~~~~^~~~~~~~~~~~~~~~~
dosage.cpp:190:7: warning: unused variable 'geno_field' [-Wunused-variable]
190 | int geno_field = a2_field + skip2 + 1;
| ^~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c annot.cpp
In file included from annot.cpp:20:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
annot.cpp: In member function 'void Plink::annotateFile()':
annot.cpp:83:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
83 | for (int j=1; j<tok.size(); j++)
| ~^~~~~~~~~~~
annot.cpp:149:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
149 | for (int i=0; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
annot.cpp:250:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
250 | if ( tokens.size() <= chr_column ||
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~
annot.cpp:251:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
251 | tokens.size() <= bp_column )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~
annot.cpp:260:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
260 | if ( tokens.size() <= pval_column )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~
annot.cpp:275:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
275 | if ( tokens.size() <= snp_column )
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~
annot.cpp:300:16: warning: unused variable 'include' [-Wunused-variable]
300 | bool include = false;
| ^~~~~~~
In file included from /usr/include/c++/12/vector:70,
from options.h:18:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double2&}; _Tp = double2; _Alloc = std::allocator<double2>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double2>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/set:60,
from plink.h:22,
from options.h:19:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<Var, double>}; _Key = Var; _Val = std::pair<const Var, double>; _KeyOfValue = std::_Select1st<std::pair<const Var, double> >; _Compare = std::less<Var>; _Alloc = std::allocator<std::pair<const Var, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<Var, std::pair<const Var, double>, std::_Select1st<std::pair<const Var, double> >, std::less<Var>, std::allocator<std::pair<const Var, double> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<Individual*, double>}; _Key = Individual*; _Val = std::pair<Individual* const, double>; _KeyOfValue = std::_Select1st<std::pair<Individual* const, double> >; _Compare = std::less<Individual*>; _Alloc = std::allocator<std::pair<Individual* const, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<Individual*, std::pair<Individual* const, double>, std::_Select1st<std::pair<Individual* const, double> >, std::less<Individual*>, std::allocator<std::pair<Individual* const, double> > >::const_iterator' changed in GCC 7.1
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, double>}; _Key = std::__cxx11::basic_string<char>; _Val = std::pair<const std::__cxx11::basic_string<char>, double>; _KeyOfValue = std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator' changed in GCC 7.1
In file included from /usr/include/c++/12/map:61,
from plink.h:23:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, double>}; _Key = std::__cxx11::basic_string<char>; _Tp = double; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<std::__cxx11::basic_string<char>, double>; _Key = std::__cxx11::basic_string<char>; _Tp = double; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void setUpQScoring(std::map<std::__cxx11::basic_string<char>, double>&, std::vector<double2>&, std::vector<std::__cxx11::basic_string<char> >&)' at dosage.cpp:1358:20:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<std::__cxx11::basic_string<char>, double>::const_iterator' {aka 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double2; _Alloc = std::allocator<double2>]',
inlined from 'void setUpQScoring(std::map<std::__cxx11::basic_string<char>, double>&, std::vector<double2>&, std::vector<std::__cxx11::basic_string<char> >&)' at dosage.cpp:1374:24:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double2*, std::vector<double2> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
dosage.cpp: In member function 'void Plink::processDosageFile()':
dosage.cpp:915:35: warning: 'snp_code' may be used uninitialized [-Wmaybe-uninitialized]
915 | SNP[snp_code]->one[personPosition[f][i]] = s1;
| ^
dosage.cpp:725:15: note: 'snp_code' was declared here
725 | int snp_code;
| ^~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<Var, double>}; _Key = Var; _Tp = double; _Compare = std::less<Var>; _Alloc = std::allocator<std::pair<const Var, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<Var, double>; _Key = Var; _Tp = double; _Compare = std::less<Var>; _Alloc = std::allocator<std::pair<const Var, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::processDosageFile()' at dosage.cpp:97:13:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<Var, double>::const_iterator' {aka 'std::_Rb_tree<Var, std::pair<const Var, double>, std::_Select1st<std::pair<const Var, double> >, std::less<Var>, std::allocator<std::pair<const Var, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<Individual*, double>}; _Key = Individual*; _Tp = double; _Compare = std::less<Individual*>; _Alloc = std::allocator<std::pair<Individual* const, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<Individual*, double>; _Key = Individual*; _Tp = double; _Compare = std::less<Individual*>; _Alloc = std::allocator<std::pair<Individual* const, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::processDosageFile()' at dosage.cpp:859:21:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<Individual*, double>::const_iterator' {aka 'std::_Rb_tree<Individual*, std::pair<Individual* const, double>, std::_Select1st<std::pair<Individual* const, double> >, std::less<Individual*>, std::allocator<std::pair<Individual* const, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<Individual*, double>}; _Key = Individual*; _Tp = double; _Compare = std::less<Individual*>; _Alloc = std::allocator<std::pair<Individual* const, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<Individual*, double>; _Key = Individual*; _Tp = double; _Compare = std::less<Individual*>; _Alloc = std::allocator<std::pair<Individual* const, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::processDosageFile()' at dosage.cpp:860:21:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<Individual*, double>::const_iterator' {aka 'std::_Rb_tree<Individual*, std::pair<Individual* const, double>, std::_Select1st<std::pair<Individual* const, double> >, std::less<Individual*>, std::allocator<std::pair<Individual* const, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<Individual*, double>}; _Key = Individual*; _Tp = double; _Compare = std::less<Individual*>; _Alloc = std::allocator<std::pair<Individual* const, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<Individual*, double>; _Key = Individual*; _Tp = double; _Compare = std::less<Individual*>; _Alloc = std::allocator<std::pair<Individual* const, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::processDosageFile()' at dosage.cpp:879:21:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<Individual*, double>::const_iterator' {aka 'std::_Rb_tree<Individual*, std::pair<Individual* const, double>, std::_Select1st<std::pair<Individual* const, double> >, std::less<Individual*>, std::allocator<std::pair<Individual* const, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<Individual*, double>}; _Key = Individual*; _Tp = double; _Compare = std::less<Individual*>; _Alloc = std::allocator<std::pair<Individual* const, double> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<Individual*, double>; _Key = Individual*; _Tp = double; _Compare = std::less<Individual*>; _Alloc = std::allocator<std::pair<Individual* const, double> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::processDosageFile()' at dosage.cpp:880:21:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<Individual*, double>::const_iterator' {aka 'std::_Rb_tree<Individual*, std::pair<Individual* const, double>, std::_Select1st<std::pair<Individual* const, double> >, std::less<Individual*>, std::allocator<std::pair<Individual* const, double> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c metaanal.cpp
In file included from metaanal.cpp:21:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
metaanal.cpp: In constructor 'Alleles::Alleles(std::string, int, int, std::string, std::string)':
metaanal.cpp:47:7: warning: 'Alleles::bp' will be initialized after [-Wreorder]
47 | int bp;
| ^~
metaanal.cpp:44:10: warning: 'std::string Alleles::a1' [-Wreorder]
44 | string a1;
| ^~
metaanal.cpp:61:3: warning: when initialized here [-Wreorder]
61 | Alleles(string name, int chr, int bp, string a1, string a2)
| ^~~~~~~
metaanal.cpp: In member function 'void Plink::metaAnalysis()':
metaanal.cpp:159:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
159 | for (int f=0; f<ns.size(); f++)
| ~^~~~~~~~~~
metaanal.cpp:182:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
182 | for (int f=0; f<ns.size(); f++)
| ~^~~~~~~~~~
metaanal.cpp:203:18: warning: statement has no effect [-Wunused-value]
203 | par::run_chr == -1;
| ~~~~~~~~~~~~~^~~~~
metaanal.cpp:213:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
213 | for (int i=0; i<tok.size(); i++)
| ~^~~~~~~~~~~
metaanal.cpp:235:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
235 | for (int f = 0 ; f < par::meta_files.size() ; f++ )
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
metaanal.cpp:261:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
261 | for (int i=0; i<tokens.size(); i++)
| ~^~~~~~~~~~~~~~
metaanal.cpp:300:30: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
300 | if ( tokens.size() != fsize )
| ~~~~~~~~~~~~~~^~~~~~~~
metaanal.cpp:253:11: warning: variable 'pval_column' set but not used [-Wunused-but-set-variable]
253 | int pval_column = -1;
| ^~~~~~~~~~~
metaanal.cpp:482:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
482 | for (int f=0; f<par::meta_files.size(); f++)
| ~^~~~~~~~~~~~~~~~~~~~~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c r.cpp
metaanal.cpp:637:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
637 | for (int f=0; f<par::meta_files.size(); f++)
| ~^~~~~~~~~~~~~~~~~~~~~~~
metaanal.cpp:680:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
680 | for (int f=0; f<par::meta_files.size(); f++)
| ~^~~~~~~~~~~~~~~~~~~~~~~
In file included from Rconnection.h:42,
from r.cpp:29:
Rsrv.h:327:6: warning: #warning using little endian based on information from endian.h [-Wcpp]
327 | #warning using little endian based on information from endian.h
| ^~~~~~~
In file included from helper.h:24,
from r.cpp:19:
options.h: In member function 'void OptionSet::display()':
options.h:73:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
73 | for ( int k = 0 ; k < i->second.size(); k++)
| ~~^~~~~~~~~~~~~~~~~~
Rconnection.h: In constructor 'Rsymbol::Rsymbol(Rmessage*)':
Rconnection.h:203:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
203 | { name=""; fix_content(); }
| ^~
Rconnection.h: In constructor 'Rsymbol::Rsymbol(unsigned int*, Rmessage*)':
Rconnection.h:206:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
206 | { name=""; fix_content(); }
| ^~
Rconnection.h: In member function 'char* Rstrings::stringAt(int)':
Rconnection.h:232:43: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
232 | char *stringAt(int i) { return (i<0||i>=nel)?0:cont[i]; }
| ~^~~~~
Rconnection.h: In member function 'void Rstrings::decode()':
Rconnection.h:245:16: warning: comparison of integer expressions of different signedness: 'int' and 'Rsize_t' {aka 'unsigned int'} [-Wsign-compare]
245 | while (i < len) { if (!c[i]) nel++; i++; }
| ~~^~~~~
Rconnection.h:249:18: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
249 | while (i < nel) {
| ~~^~~~~
r.cpp: In member function 'void Plink::Rfunc()':
r.cpp:330:15: warning: unused variable 'ct' [-Wunused-variable]
330 | int ct = data->length();
| ^~
In file included from /usr/include/c++/12/vector:70,
from stats.h:19,
from metaanal.cpp:20:
/usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
439 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/set:60,
from plink.h:22,
from stats.h:22:
/usr/include/c++/12/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {std::pair<int, SInfo>}; _Key = int; _Val = std::pair<const int, SInfo>; _KeyOfValue = std::_Select1st<std::pair<const int, SInfo> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, SInfo> >]':
/usr/include/c++/12/bits/stl_tree.h:2457:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, SInfo>, std::_Select1st<std::pair<const int, SInfo> >, std::less<int>, std::allocator<std::pair<const int, SInfo> > >::const_iterator' changed in GCC 7.1
2457 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
r.cpp:380:16: warning: 'rCov' may be used uninitialized [-Wmaybe-uninitialized]
380 | delete rCov;
| ^~~~
r.cpp:165:13: note: 'rCov' was declared here
165 | Rdouble * rCov;
| ^~~~
r.cpp:378:14: warning: 'rS' may be used uninitialized [-Wmaybe-uninitialized]
378 | delete rS;
| ^~
r.cpp:164:14: note: 'rS' was declared here
164 | Rinteger * rS;
| ^~
r.cpp:377:14: warning: 'rP' may be used uninitialized [-Wmaybe-uninitialized]
377 | delete rP;
| ^~
r.cpp:163:13: note: 'rP' was declared here
163 | Rdouble * rP;
| ^~
r.cpp:376:14: warning: 'rN' may be used uninitialized [-Wmaybe-uninitialized]
376 | delete rN;
| ^~
r.cpp:162:14: note: 'rN' was declared here
162 | Rinteger * rN;
| ^~
r.cpp:399:10: warning: 'rc' may be used uninitialized [-Wmaybe-uninitialized]
399 | delete rc;
| ^~
r.cpp:68:16: note: 'rc' was declared here
68 | Rconnection *rc;
| ^~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c Rconnection.cpp
In file included from Rconnection.h:42,
from Rconnection.cpp:30:
Rsrv.h:327:6: warning: #warning using little endian based on information from endian.h [-Wcpp]
327 | #warning using little endian based on information from endian.h
| ^~~~~~~
In file included from /usr/include/c++/12/map:61,
from plink.h:23:
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int, SInfo>}; _Key = int; _Tp = SInfo; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, SInfo> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int, SInfo>; _Key = int; _Tp = SInfo; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, SInfo> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::metaAnalysis()' at metaanal.cpp:418:16:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int, SInfo>::const_iterator' {aka 'std::_Rb_tree<int, std::pair<const int, SInfo>, std::_Select1st<std::pair<const int, SInfo> >, std::less<int>, std::allocator<std::pair<const int, SInfo> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::iterator std::map<_Key, _Tp, _Compare, _Alloc>::emplace_hint(const_iterator, _Args&& ...) [with _Args = {std::pair<int, SInfo>}; _Key = int; _Tp = SInfo; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, SInfo> >]',
inlined from 'std::__enable_if_t<std::is_constructible<std::pair<const _Key, _Tp>, _Pair>::value, std::pair<typename std::_Rb_tree<_Key, std::pair<const _Key, _Tp>, std::_Select1st<std::pair<const _Key, _Tp> >, _Compare, typename __gnu_cxx::__alloc_traits<_Allocator>::rebind<std::pair<const _Key, _Tp> >::other>::iterator, bool> > std::map<_Key, _Tp, _Compare, _Alloc>::insert(_Pair&&) [with _Pair = std::pair<int, SInfo>; _Key = int; _Tp = SInfo; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, SInfo> >]' at /usr/include/c++/12/bits/stl_map.h:858:27,
inlined from 'void Plink::metaAnalysis()' at metaanal.cpp:425:24:
/usr/include/c++/12/bits/stl_map.h:638:45: note: parameter passing for argument of type 'std::map<int, SInfo>::const_iterator' {aka 'std::_Rb_tree<int, std::pair<const int, SInfo>, std::_Select1st<std::pair<const int, SInfo> >, std::less<int>, std::allocator<std::pair<const int, SInfo> > >::const_iterator'} changed in GCC 7.1
638 | return _M_t._M_emplace_hint_unique(__pos,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~
639 | std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12/vector:64:
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::metaAnalysis()' at metaanal.cpp:525:19:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]',
inlined from 'void Plink::metaAnalysis()' at metaanal.cpp:526:20:
/usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1287 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
Rconnection.h: In constructor 'Rsymbol::Rsymbol(Rmessage*)':
Rconnection.h:203:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
203 | { name=""; fix_content(); }
| ^~
Rconnection.h: In constructor 'Rsymbol::Rsymbol(unsigned int*, Rmessage*)':
Rconnection.h:206:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
206 | { name=""; fix_content(); }
| ^~
Rconnection.h: In member function 'char* Rstrings::stringAt(int)':
Rconnection.h:232:43: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
232 | char *stringAt(int i) { return (i<0||i>=nel)?0:cont[i]; }
| ~^~~~~
Rconnection.h: In member function 'void Rstrings::decode()':
Rconnection.h:245:16: warning: comparison of integer expressions of different signedness: 'int' and 'Rsize_t' {aka 'unsigned int'} [-Wsign-compare]
245 | while (i < len) { if (!c[i]) nel++; i++; }
| ~~^~~~~
Rconnection.h:249:18: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
249 | while (i < nel) {
| ~~^~~~~
Rconnection.cpp: At global scope:
Rconnection.cpp:56:20: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
56 | static char *myID= "Rsrv0103QAP1"; /* this client supports up to protocol version 0103 */
| ^~~~~~~~~~~~~~
Rconnection.cpp: In destructor 'virtual Rconnection::~Rconnection()':
Rconnection.cpp:567:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
567 | if (host) free(host); host=0;
| ^~
Rconnection.cpp:567:27: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
567 | if (host) free(host); host=0;
| ^~~~
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -c zfstream.cpp
g++ -Wall -g -ffile-prefix-map=/build/plink-1.07+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DWITH_R_PLUGINS -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DUNIX -O3 -o plink plink.o options.o input.o binput.o tinput.o genome.o helper.o stats.o filters.o locus.o multi.o crandom.o cluster.o mds.o output.o informative.o assoc.o epi.o prephap.o phase.o trio.o tdt.o sharing.o genepi.o sets.o perm.o mh.o genedrop.o gxe.o merge.o hotel.o multiple.o haploCC.o haploTDT.o poo.o webcheck.o qfam.o linear.o bmerge.o parse.o mishap.o legacy.o homozyg.o segment.o model.o logistic.o glm.o dcdflib.o elf.o dfam.o fisher.o linput.o sockets.o lookup.o proxy.o pdriver.o haploQTL.o haplohelper.o haplowindow.o genogroup.o nonfounderphasing.o clumpld.o genoerr.o em.o impute.o metaem.o profile.o nlist.o whap.o simul.o gvar.o cnv.o step.o greport.o flip.o qualscores.o cnvqt.o cfamily.o setscreen.o idhelp.o tag.o hapglm.o lookup2.o blox.o zed.o dosage.o annot.o metaanal.o r.o Rconnection.o zfstream.o -ldl -lcrypt -lz
make[2]: Leaving directory '/build/plink-1.07+dfsg'
make[1]: Leaving directory '/build/plink-1.07+dfsg'
dh_auto_test
create-stamp debian/debhelper-build-stamp
dh_prep
dh_installdirs
dh_auto_install --destdir=debian/plink/
dh_install
dh_installdocs
debian/rules override_dh_installchangelogs
make[1]: Entering directory '/build/plink-1.07+dfsg'
dh_installchangelogs debian/upstream.changelog
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make[1]: Entering directory '/build/plink-1.07+dfsg'
dh_installexamples
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dh_installman
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dh_strip -a
dh_makeshlibs -a
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dpkg-shlibdeps: warning: debian/plink/usr/lib/debian-med/bin/plink contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dh_installdeb
dh_gencontrol
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dpkg-deb: building package 'plink' in '../plink_1.07+dfsg-4_armhf.deb'.
dpkg-deb: building package 'plink-dbgsym' in '../plink-dbgsym_1.07+dfsg-4_armhf.deb'.
dpkg-genbuildinfo --build=binary -O../plink_1.07+dfsg-4_armhf.buildinfo
dpkg-genchanges --build=binary -O../plink_1.07+dfsg-4_armhf.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: not including original source code in upload
I: copying local configuration
I: user script /srv/workspace/pbuilder/5174/tmp/hooks/B01_cleanup starting
I: user script /srv/workspace/pbuilder/5174/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/5174 and its subdirectories
I: Current time: Thu May 18 14:18:22 +14 2023
I: pbuilder-time-stamp: 1684369102