I: pbuilder: network access will be disabled during build I: Current time: Thu May 25 18:00:06 -12 2023 I: pbuilder-time-stamp: 1685080806 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 [gmap_2021-12-17+ds-3.dsc] I: copying [./gmap_2021-12-17+ds.orig.tar.xz] I: copying [./gmap_2021-12-17+ds-3.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Oct 3 06:26:58 2022 -12 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./gmap_2021-12-17+ds-3.dsc: no acceptable signature found dpkg-source: info: extracting gmap in gmap-2021-12-17+ds dpkg-source: info: unpacking gmap_2021-12-17+ds.orig.tar.xz dpkg-source: info: unpacking gmap_2021-12-17+ds-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying install-data-local dpkg-source: info: applying remove_getopt_code_copy.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/31763/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='a51602307386459d9a9d691cd98e251b' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='31763' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.nltpxyf1/pbuilderrc_MhPT --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.nltpxyf1/b1 --logfile b1/build.log gmap_2021-12-17+ds-3.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux ff4a 5.10.0-23-armmp-lpae #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 23 09:24 bash -rwxr-xr-x 3 root root 67144 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 67112 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 67632 Sep 20 2022 cat -rwxr-xr-x 1 root root 67676 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67644 Sep 20 2022 chmod -rwxr-xr-x 1 root root 67684 Sep 20 2022 chown -rwxr-xr-x 1 root root 133532 Sep 20 2022 cp -rwxr-xr-x 1 root root 132868 Jan 5 01:20 dash -rwxr-xr-x 1 root root 133220 Sep 20 2022 date -rwxr-xr-x 1 root root 67732 Sep 20 2022 dd -rwxr-xr-x 1 root root 68104 Sep 20 2022 df -rwxr-xr-x 1 root root 133632 Sep 20 2022 dir -rwxr-xr-x 1 root root 59128 Mar 22 21:02 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 67560 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 67548 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 55748 Mar 22 21:02 findmnt -rwsr-xr-x 1 root root 26208 Mar 22 20:15 fusermount -rwxr-xr-x 1 root root 128608 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 64220 Apr 9 2022 gzip -rwxr-xr-x 1 root root 67032 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 67720 Sep 20 2022 ln -rwxr-xr-x 1 root root 35132 Mar 22 21:51 login -rwxr-xr-x 1 root root 133632 Sep 20 2022 ls -rwxr-xr-x 1 root root 136808 Mar 22 21:02 lsblk -rwxr-xr-x 1 root root 67800 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 67764 Sep 20 2022 mknod -rwxr-xr-x 1 root root 67596 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 38504 Mar 22 21:02 more -rwsr-xr-x 1 root root 38496 Mar 22 21:02 mount -rwxr-xr-x 1 root root 9824 Mar 22 21:02 mountpoint -rwxr-xr-x 1 root root 133532 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 67608 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:24 rbash -> bash -rwxr-xr-x 1 root root 67600 Sep 20 2022 readlink -rwxr-xr-x 1 root root 67672 Sep 20 2022 rm -rwxr-xr-x 1 root root 67600 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 67400 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 133372 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 67584 Sep 20 2022 sleep -rwxr-xr-x 1 root root 67644 Sep 20 2022 stty -rwsr-xr-x 1 root root 50800 Mar 22 21:02 su -rwxr-xr-x 1 root root 67584 Sep 20 2022 sync -rwxr-xr-x 1 root root 336764 Apr 6 02:25 tar -rwxr-xr-x 1 root root 67144 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 133224 Sep 20 2022 touch -rwxr-xr-x 1 root root 67548 Sep 20 2022 true -rwxr-xr-x 1 root root 9768 Mar 22 20:15 ulockmgr_server -rwsr-xr-x 1 root root 22108 Mar 22 21:02 umount -rwxr-xr-x 1 root root 67572 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 133632 Sep 20 2022 vdir -rwxr-xr-x 1 root root 42608 Mar 22 21:02 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/31763/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 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), help2man, libbz2-dev, zlib1g-dev, debhelper dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19326 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 help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on debhelper; however: Package debhelper 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} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libbz2-dev{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} liblocale-gettext-perl{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: bzip2-doc curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 34 newly installed, 0 to remove and 0 not upgraded. Need to get 19.2 MB of archives. After unpacking 69.7 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main armhf liblocale-gettext-perl armhf 1.07-5 [14.9 kB] Get: 2 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 3 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB] Get: 4 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB] Get: 5 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB] Get: 6 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB] Get: 7 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 8 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB] Get: 9 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB] Get: 10 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB] Get: 11 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB] Get: 12 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB] Get: 13 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB] Get: 14 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 16 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB] Get: 17 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB] Get: 18 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB] Get: 19 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B] Get: 22 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 23 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 24 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB] Get: 25 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB] Get: 26 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB] Get: 27 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.2 [591 kB] Get: 28 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB] Get: 29 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 32 http://deb.debian.org/debian bookworm/main armhf help2man armhf 1.49.3 [198 kB] Get: 33 http://deb.debian.org/debian bookworm/main armhf libbz2-dev armhf 1.0.8-5+b1 [28.1 kB] Get: 34 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] Fetched 19.2 MB in 2s (11.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19326 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-5_armhf.deb ... Unpacking liblocale-gettext-perl (1.07-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.44-3_armhf.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../03-libmagic1_1%3a5.44-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.44-3_armhf.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-12_armhf.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../06-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.22.4-10_armhf.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.38.1-5+b1_armhf.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../09-libpipeline1_1.5.7-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.11.2-2_armhf.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-3_armhf.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-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 .../15-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-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 .../20-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 .../21-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 .../22-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 .../23-libelf1_0.188-2.1_armhf.deb ... Unpacking libelf1:armhf (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.15-1_armhf.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../25-libicu72_72.1-3_armhf.deb ... Unpacking libicu72:armhf (72.1-3) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../26-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 .../27-gettext_0.21-12_armhf.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-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 .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Selecting previously unselected package help2man. Preparing to unpack .../31-help2man_1.49.3_armhf.deb ... Unpacking help2man (1.49.3) ... Selecting previously unselected package libbz2-dev:armhf. Preparing to unpack .../32-libbz2-dev_1.0.8-5+b1_armhf.deb ... Unpacking libbz2-dev:armhf (1.0.8-5+b1) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../33-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) ... Setting up zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libelf1:armhf (0.188-2.1) ... Setting up libxml2:armhf (2.9.14+dfsg-1.2) ... Setting up liblocale-gettext-perl (1.07-5) ... Setting up libbz2-dev:armhf (1.0.8-5+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.11.4) ... Processing triggers for libc-bin (2.36-9) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/gmap-2021-12-17+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../gmap_2021-12-17+ds-3_source.changes dpkg-buildpackage: info: source package gmap dpkg-buildpackage: info: source version 2021-12-17+ds-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf configure.ac:78: warning: The macro `AC_CONFIG_HEADER' is obsolete. configure.ac:78: You should run autoupdate. ./lib/autoconf/status.m4:719: AC_CONFIG_HEADER is expanded from... configure.ac:78: the top level configure.ac:87: warning: The macro `AC_CANONICAL_SYSTEM' is obsolete. configure.ac:87: You should run autoupdate. ./lib/autoconf/general.m4:2081: AC_CANONICAL_SYSTEM is expanded from... configure.ac:87: the top level configure.ac:117: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:117: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:117: the top level configure.ac:124: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:124: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:124: the top level configure.ac:173: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:173: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:173: the top level configure.ac:180: warning: The macro `AC_LANG_C' is obsolete. configure.ac:180: You should run autoupdate. ./lib/autoconf/c.m4:72: AC_LANG_C is expanded from... config/acx_pthread.m4:47: ACX_PTHREAD is expanded from... configure.ac:180: the top level configure.ac:180: warning: The macro `AC_TRY_LINK' is obsolete. configure.ac:180: You should run autoupdate. ./lib/autoconf/general.m4:2920: AC_TRY_LINK is expanded from... config/acx_pthread.m4:47: ACX_PTHREAD is expanded from... configure.ac:180: the top level configure.ac:189: warning: The macro `AC_LANG_C' is obsolete. configure.ac:189: You should run autoupdate. ./lib/autoconf/c.m4:72: AC_LANG_C is expanded from... config/acx_pthread.m4:47: ACX_PTHREAD is expanded from... configure.ac:189: the top level configure.ac:189: warning: The macro `AC_TRY_LINK' is obsolete. configure.ac:189: You should run autoupdate. ./lib/autoconf/general.m4:2920: AC_TRY_LINK is expanded from... config/acx_pthread.m4:47: ACX_PTHREAD is expanded from... configure.ac:189: the top level configure.ac:195: warning: The macro `AC_HEADER_STDC' is obsolete. configure.ac:195: You should run autoupdate. ./lib/autoconf/headers.m4:704: AC_HEADER_STDC is expanded from... configure.ac:195: the top level configure.ac:229: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:229: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:229: the top level configure.ac:251: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:251: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:251: the top level configure.ac:258: warning: The macro `AC_LANG_C' is obsolete. configure.ac:258: You should run autoupdate. ./lib/autoconf/c.m4:72: AC_LANG_C is expanded from... config/acx_mmap_fixed.m4:1: ACX_MMAP_FIXED is expanded from... configure.ac:258: the top level configure.ac:258: warning: The macro `AC_TRY_LINK' is obsolete. configure.ac:258: You should run autoupdate. ./lib/autoconf/general.m4:2920: AC_TRY_LINK is expanded from... config/acx_mmap_fixed.m4:1: ACX_MMAP_FIXED is expanded from... configure.ac:258: the top level configure.ac:259: warning: The macro `AC_LANG_C' is obsolete. configure.ac:259: You should run autoupdate. ./lib/autoconf/c.m4:72: AC_LANG_C is expanded from... config/acx_mmap_variable.m4:1: ACX_MMAP_VARIABLE is expanded from... configure.ac:259: the top level configure.ac:259: warning: The macro `AC_TRY_LINK' is obsolete. configure.ac:259: You should run autoupdate. ./lib/autoconf/general.m4:2920: AC_TRY_LINK is expanded from... config/acx_mmap_variable.m4:1: ACX_MMAP_VARIABLE is expanded from... configure.ac:259: the top level configure.ac:268: warning: The macro `AC_LANG_C' is obsolete. configure.ac:268: You should run autoupdate. ./lib/autoconf/c.m4:72: AC_LANG_C is expanded from... config/acx_mmap_fixed.m4:1: ACX_MMAP_FIXED is expanded from... configure.ac:268: the top level configure.ac:268: warning: The macro `AC_TRY_LINK' is obsolete. configure.ac:268: You should run autoupdate. ./lib/autoconf/general.m4:2920: AC_TRY_LINK is expanded from... config/acx_mmap_fixed.m4:1: ACX_MMAP_FIXED is expanded from... configure.ac:268: the top level configure.ac:269: warning: The macro `AC_LANG_C' is obsolete. configure.ac:269: You should run autoupdate. ./lib/autoconf/c.m4:72: AC_LANG_C is expanded from... config/acx_mmap_variable.m4:1: ACX_MMAP_VARIABLE is expanded from... configure.ac:269: the top level configure.ac:269: warning: The macro `AC_TRY_LINK' is obsolete. configure.ac:269: You should run autoupdate. ./lib/autoconf/general.m4:2920: AC_TRY_LINK is expanded from... config/acx_mmap_variable.m4:1: ACX_MMAP_VARIABLE is expanded from... configure.ac:269: the top level configure.ac:292: warning: The macro `AC_TRY_RUN' is obsolete. configure.ac:292: You should run autoupdate. ./lib/autoconf/general.m4:2997: AC_TRY_RUN is expanded from... lib/m4sugar/m4sh.m4:692: _AS_IF_ELSE is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/general.m4:2249: AC_CACHE_VAL is expanded from... ./lib/autoconf/general.m4:2270: AC_CACHE_CHECK is expanded from... config/fopen.m4:25: ACX_FUNC_FOPEN_BINARY is expanded from... configure.ac:292: the top level configure.ac:293: warning: The macro `AC_TRY_RUN' is obsolete. configure.ac:293: You should run autoupdate. ./lib/autoconf/general.m4:2997: AC_TRY_RUN is expanded from... lib/m4sugar/m4sh.m4:692: _AS_IF_ELSE is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/general.m4:2249: AC_CACHE_VAL is expanded from... ./lib/autoconf/general.m4:2270: AC_CACHE_CHECK is expanded from... config/fopen.m4:26: ACX_FUNC_FOPEN_TEXT is expanded from... configure.ac:293: the top level configure.ac:327: warning: The macro `AC_LANG_C' is obsolete. configure.ac:327: You should run autoupdate. ./lib/autoconf/c.m4:72: AC_LANG_C is expanded from... config/sse2_shift_defect.m4:2: ACX_SSE2_SHIFT_DEFECT is expanded from... configure.ac:327: the top level configure.ac:332: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:332: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:332: the top level configure.ac:384: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:384: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:384: the top level configure.ac:436: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:436: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:436: the top level configure.ac:462: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:462: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:462: the top level configure.ac:511: warning: The macro `AC_HELP_STRING' is obsolete. configure.ac:511: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.ac:511: the top level configure.ac:106: installing 'config/compile' configure.ac:87: installing 'config/config.guess' configure.ac:87: installing 'config/config.sub' configure.ac:111: installing 'config/install-sh' configure.ac:111: installing 'config/missing' Makefile.am: installing './INSTALL' src/Makefile.am: installing 'config/depcomp' src/Makefile.am:995: warning: variable 'dist_bulk_counts_SOURCES' is defined but no program or src/Makefile.am:995: library has 'bulk_counts' as canonical name (possible typo) src/Makefile.am:911: warning: variable 'dist_iit_pileup_SOURCES' is defined but no program or src/Makefile.am:911: library has 'iit_pileup' as canonical name (possible typo) src/Makefile.am:1021: warning: variable 'dist_sc_counts_SOURCES' is defined but no program or src/Makefile.am:1021: library has 'sc_counts' as canonical name (possible typo) src/Makefile.am:951: warning: variable 'dist_umi_correct_SOURCES' is defined but no program or src/Makefile.am:951: library has 'umi_correct' as canonical name (possible typo) src/Makefile.am:602: warning: variable 'dist_uniqscan_SOURCES' is defined but no program or src/Makefile.am:602: library has 'uniqscan' as canonical name (possible typo) src/Makefile.am:657: warning: variable 'dist_uniqscanl_SOURCES' is defined but no program or src/Makefile.am:657: library has 'uniqscanl' as canonical name (possible typo) src/Makefile.am:970: warning: variable 'dist_velocity_counts_SOURCES' is defined but no program or src/Makefile.am:970: library has 'velocity_counts' as canonical name (possible typo) src/Makefile.am:994: warning: variable 'bulk_counts_LDADD' is defined but no program or src/Makefile.am:994: library has 'bulk_counts' as canonical name (possible typo) src/Makefile.am:910: warning: variable 'iit_pileup_LDADD' is defined but no program or src/Makefile.am:910: library has 'iit_pileup' as canonical name (possible typo) src/Makefile.am:1020: warning: variable 'sc_counts_LDADD' is defined but no program or src/Makefile.am:1020: library has 'sc_counts' as canonical name (possible typo) src/Makefile.am:950: warning: variable 'umi_correct_LDADD' is defined but no program or src/Makefile.am:950: library has 'umi_correct' as canonical name (possible typo) src/Makefile.am:600: warning: variable 'uniqscan_LDADD' is defined but no program or src/Makefile.am:600: library has 'uniqscan' as canonical name (possible typo) src/Makefile.am:655: warning: variable 'uniqscanl_LDADD' is defined but no program or src/Makefile.am:655: library has 'uniqscanl' as canonical name (possible typo) src/Makefile.am:969: warning: variable 'velocity_counts_LDADD' is defined but no program or src/Makefile.am:969: library has 'velocity_counts' as canonical name (possible typo) src/Makefile.am:993: warning: variable 'bulk_counts_LDFLAGS' is defined but no program or src/Makefile.am:993: library has 'bulk_counts' as canonical name (possible typo) src/Makefile.am:909: warning: variable 'iit_pileup_LDFLAGS' is defined but no program or src/Makefile.am:909: library has 'iit_pileup' as canonical name (possible typo) src/Makefile.am:1019: warning: variable 'sc_counts_LDFLAGS' is defined but no program or src/Makefile.am:1019: library has 'sc_counts' as canonical name (possible typo) src/Makefile.am:949: warning: variable 'umi_correct_LDFLAGS' is defined but no program or src/Makefile.am:949: library has 'umi_correct' as canonical name (possible typo) src/Makefile.am:599: warning: variable 'uniqscan_LDFLAGS' is defined but no program or src/Makefile.am:599: library has 'uniqscan' as canonical name (possible typo) src/Makefile.am:654: warning: variable 'uniqscanl_LDFLAGS' is defined but no program or src/Makefile.am:654: library has 'uniqscanl' as canonical name (possible typo) src/Makefile.am:968: warning: variable 'velocity_counts_LDFLAGS' is defined but no program or src/Makefile.am:968: library has 'velocity_counts' as canonical name (possible typo) parallel-tests: installing 'config/test-driver' debian/rules override_dh_auto_configure make[1]: Entering directory '/build/gmap-2021-12-17+ds' dh_auto_configure -- --with-gmapdb=/var/cache/gmap \ --bindir=/usr/lib/gmap --disable-simd ./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --with-gmapdb=/var/cache/gmap --bindir=/usr/lib/gmap --disable-simd checking package version... 2021-12-17 loading default site script ./config.site checking CFLAGS... -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security checking build system type... arm-unknown-linux-gnueabihf checking host system type... arm-unknown-linux-gnueabihf checking target system type... arm-unknown-linux-gnueabihf checking for non-Intel CPU... no checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... 64 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports the include directive... yes (GNU style) checking whether make supports nested variables... yes checking dependency style of gcc... none checking whether to enable maintainer-specific portions of Makefiles... no checking bindir... /usr/lib/gmap checking for a working version of perl... /usr/bin/perl checking for gcc... (cached) gcc checking whether the compiler supports GNU C... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to enable C11 features... (cached) none needed checking whether gcc understands -c and -o together... (cached) yes checking for C compiler vendor... gnu checking for rint in -lm... yes checking for pthreads feature... not specified so enabled by default checking for the pthreads library -lpthreads... no checking whether pthreads work without any flags... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking if more special flags are required for pthreads... no checking for cc_r... gcc checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking for fcntl.h... yes checking for limits.h... yes checking for stddef.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for strings.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/types.h... (cached) yes checking for inline... inline checking whether byte ordering is bigendian... no checking for an ANSI C-conforming const... yes checking for working volatile... yes checking for size_t... yes checking for off_t... yes checking for caddr_t... yes checking size of unsigned long... 4 checking size of unsigned long long... 8 checking size of off_t... 8 checking for _LARGEFILE_SOURCE value needed for large files... no checking whether alloca is enabled... not specified so disabled by default checking whether mmap is enabled... not specified so enabled by default checking for working mmap with MAP_FIXED... yes checking for working mmap with MAP_VARIABLE... no checking for MAP_FILE in mmap... yes checking for MAP_VARIABLE in mmap... no checking for MAP_SHARED in mmap... yes checking for MAP_PRIVATE in mmap... yes checking for MAP_FAILED in mmap... yes checking for MADV_DONTNEED in madvise... yes checking for MADV_WILLNEED in madvise... yes checking for MADV_RANDOM in madvise... yes checking for MADV_SEQUENTIAL in madvise... yes checking for SHM_NORESERVE in shmget... yes checking for ceil... yes checking for floor... yes checking for index... yes checking for log... yes checking for madvise... yes checking for memcpy... yes checking for memmove... yes checking for memset... yes checking for munmap... yes checking for pow... yes checking for rint... yes checking for stat64... yes checking for strtoul... yes checking for sysconf... yes checking for sysctl... no checking for sigaction... yes checking for shmget... yes checking for shmctl... yes checking for shmat... yes checking for shmdt... yes checking for semget... yes checking for semctl... yes checking for semop... yes checking for struct stat64... no checking for pagesize via sysconf... yes checking for pagesize via sysctl... no checking whether fopen accepts "b" mode... yes checking whether fopen accepts "t" mode... yes checking for gcc options needed to detect all undeclared functions... none needed checking whether C compiler accepts -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -mpopcnt... no configure: WARNING: Your compiler does not support -mpopcnt checking whether __builtin_popcount is declared... yes checking whether __builtin_popcount works... yes checking whether __builtin_clz is declared... yes checking whether __builtin_clz works... yes checking whether __builtin_ctz is declared... yes checking whether __builtin_ctz works... yes checking for bsr instruction in assembly... yes checking compiler is defective and requires an immediate in sse2 shift commands... yes checking for _mm_extract_epi64... no checking for _mm_popcnt_u64... no checking for whether simd is enabled... disabled checking for sse2 support... no checking for ssse3 support... no checking for sse4.1 support... no checking for sse4.2 support... no checking for popcnt support... no checking for bmi1 support... no checking for avx2 support... no checking for bmi2 support... no checking for avx512 support... no checking for avx512bw and avx512vl support... no checking gmapdb... /var/cache/gmap checking MAX_STACK_READLENGTH... 300 checking for zlib support... enabled checking for zlib.h... yes checking for gzopen in -lz... yes checking for gzeof in -lz... yes checking for gzgetc in -lz... yes checking for gzgets in -lz... yes checking for gzclose in -lz... yes checking if zlib package is complete... working checking for gzbuffer in -lz... yes checking for bzlib support... enabled checking for bzlib.h... yes checking for BZ2_bzReadOpen in -lbz2... yes checking for BZ2_bzRead in -lbz2... yes checking for BZ2_bzReadClose in -lbz2... yes checking if bzlib package is complete... working checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating util/Makefile config.status: creating util/gmap_process.pl config.status: creating util/gmap_build.pl config.status: creating util/gmap_cat.pl config.status: creating util/md_coords.pl config.status: creating util/fa_coords.pl config.status: creating util/psl_splicesites.pl config.status: creating util/psl_introns.pl config.status: creating util/psl_genes.pl config.status: creating util/ensembl_genes.pl config.status: creating util/gtf_splicesites.pl config.status: creating util/gtf_transcript_splicesites.pl config.status: creating util/gtf_introns.pl config.status: creating util/gtf_genes.pl config.status: creating util/gff3_splicesites.pl config.status: creating util/gff3_introns.pl config.status: creating util/gff3_genes.pl config.status: creating util/dbsnp_iit.pl config.status: creating util/gvf_iit.pl config.status: creating util/vcf_iit.pl config.status: creating tests/Makefile config.status: creating tests/align.test config.status: creating tests/coords1.test config.status: creating tests/setup1.test config.status: creating tests/iit.test config.status: creating src/config.h config.status: executing depfiles commands configure: WARNING: WARNING: Your C compiler does not know how to handle a particular form of the SSE2 shift commands, and must be somewhat old (probably gcc 4.1 or gcc 4.2). The configure script has therefore substituted alternate C code that your compiler can handle. However, for optimal performance, you may want to obtain a more recent C compiler and build the code with that. checking standard compiler and flags to be used... gcc -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security checking standard linker flags to be used... checking pthread compiler flags to be used... checking popcnt flags to be used... checking compile level... none make[1]: Leaving directory '/build/gmap-2021-12-17+ds' dh_auto_build make -j3 make[1]: Entering directory '/build/gmap-2021-12-17+ds' Making all in src make[2]: Entering directory '/build/gmap-2021-12-17+ds/src' make all-am make[3]: Entering directory '/build/gmap-2021-12-17+ds/src' gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMAIN=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cpuid-cpuid.o `test -f 'cpuid.c' || echo './'`cpuid.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap-cpuid.o `test -f 'cpuid.c' || echo './'`cpuid.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap-gmap_select.o `test -f 'gmap_select.c' || echo './'`gmap_select.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl-cpuid.o `test -f 'cpuid.c' || echo './'`cpuid.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl-gmapl_select.o `test -f 'gmapl_select.c' || echo './'`gmapl_select.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-filestring.o `test -f 'filestring.c' || echo './'`filestring.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-md5.o `test -f 'md5.c' || echo './'`md5.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-sequence.o `test -f 'sequence.c' || echo './'`sequence.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-genome.o `test -f 'genome.c' || echo './'`genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-chrom.o `test -f 'chrom.c' || echo './'`chrom.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-chrnum.o `test -f 'chrnum.c' || echo './'`chrnum.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_genome-get-genome.o `test -f 'get-genome.c' || echo './'`get-genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-filestring.o `test -f 'filestring.c' || echo './'`filestring.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-iit-write-univ.o `test -f 'iit-write-univ.c' || echo './'`iit-write-univ.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-md5.o `test -f 'md5.c' || echo './'`md5.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-sequence.o `test -f 'sequence.c' || echo './'`sequence.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-genome.o `test -f 'genome.c' || echo './'`genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-compress-write.o `test -f 'compress-write.c' || echo './'`compress-write.c In file included from compress-write.c:21: compress-write.c: In function 'Compress_cat': littleendian.h:26:29: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 26 | #define FREAD_UINTS(a,n,fp) fread(a,sizeof(UINT4),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ compress-write.c:877:5: note: in expansion of macro 'FREAD_UINTS' 877 | FREAD_UINTS(Buffer,3,fp); | ^~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-genome-write.o `test -f 'genome-write.c' || echo './'`genome-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-compress.o `test -f 'compress.c' || echo './'`compress.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-popcount.o `test -f 'popcount.c' || echo './'`popcount.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-genome128_hr.o `test -f 'genome128_hr.c' || echo './'`genome128_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-genome128_consec.o `test -f 'genome128_consec.c' || echo './'`genome128_consec.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-bitpack64-read.o `test -f 'bitpack64-read.c' || echo './'`bitpack64-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-bitpack64-readtwo.o `test -f 'bitpack64-readtwo.c' || echo './'`bitpack64-readtwo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-bitpack64-access.o `test -f 'bitpack64-access.c' || echo './'`bitpack64-access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-bitpack64-incr.o `test -f 'bitpack64-incr.c' || echo './'`bitpack64-incr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-bitpack64-write.o `test -f 'bitpack64-write.c' || echo './'`bitpack64-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-indexdb.o `test -f 'indexdb.c' || echo './'`indexdb.c indexdb.c: In function 'Indexdb_get_filenames_bitpack': indexdb.c:933:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 933 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 934 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int indexdb.c: In function 'positions_read_multiple': indexdb.c:1951:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1951 | read(positions_fd,buffer,4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-indexdb-write.o `test -f 'indexdb-write.c' || echo './'`indexdb-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-regiondb.o `test -f 'regiondb.c' || echo './'`regiondb.c regiondb.c: In function 'Regiondb_get_filenames': regiondb.c:1646:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 1646 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 1647 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-regiondb-write.o `test -f 'regiondb-write.c' || echo './'`regiondb-write.c In file included from regiondb-write.c:19: regiondb-write.c: In function 'Region_read': littleendian.h:22:31: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 22 | #define FREAD_USHORTS(a,n,fp) fread(a,sizeof(UINT2),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ regiondb-write.c:478:3: note: in expansion of macro 'FREAD_USHORTS' 478 | FREAD_USHORTS(buffer->offsets,offsets_size,fp); | ^~~~~~~~~~~~~ littleendian.h:22:31: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 22 | #define FREAD_USHORTS(a,n,fp) fread(a,sizeof(UINT2),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ regiondb-write.c:479:3: note: in expansion of macro 'FREAD_USHORTS' 479 | FREAD_USHORTS(buffer->positions,REGION_LENGTH,fp); | ^~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-table.o `test -f 'table.c' || echo './'`table.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-tableuint.o `test -f 'tableuint.c' || echo './'`tableuint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-tableuint8.o `test -f 'tableuint8.c' || echo './'`tableuint8.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-tableint.o `test -f 'tableint.c' || echo './'`tableint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-chrom.o `test -f 'chrom.c' || echo './'`chrom.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-segmentpos.o `test -f 'segmentpos.c' || echo './'`segmentpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-uint8list.o `test -f 'uint8list.c' || echo './'`uint8list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapindex-gmapindex.o `test -f 'gmapindex.c' || echo './'`gmapindex.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-filestring.o `test -f 'filestring.c' || echo './'`filestring.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-bitpack64-read.o `test -f 'bitpack64-read.c' || echo './'`bitpack64-read.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-bitpack64-readtwo.o `test -f 'bitpack64-readtwo.c' || echo './'`bitpack64-readtwo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-bitpack64-access.o `test -f 'bitpack64-access.c' || echo './'`bitpack64-access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-bitpack64-incr.o `test -f 'bitpack64-incr.c' || echo './'`bitpack64-incr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-bitpack64-write.o `test -f 'bitpack64-write.c' || echo './'`bitpack64-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-indexdb.o `test -f 'indexdb.c' || echo './'`indexdb.c indexdb.c: In function 'Indexdb_get_filenames_bitpack': indexdb.c:933:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 933 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 934 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int indexdb.c: In function 'positions_read_multiple': indexdb.c:1951:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1951 | read(positions_fd,buffer,4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-indexdb-write.o `test -f 'indexdb-write.c' || echo './'`indexdb-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-compress-write.o `test -f 'compress-write.c' || echo './'`compress-write.c In file included from compress-write.c:21: compress-write.c: In function 'Compress_cat': littleendian.h:26:29: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 26 | #define FREAD_UINTS(a,n,fp) fread(a,sizeof(UINT4),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ compress-write.c:877:5: note: in expansion of macro 'FREAD_UINTS' 877 | FREAD_UINTS(Buffer,3,fp); | ^~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indexdb_cat-indexdb-cat.o `test -f 'indexdb-cat.c' || echo './'`indexdb-cat.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-doublelist.o `test -f 'doublelist.c' || echo './'`doublelist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-iit-write-univ.o `test -f 'iit-write-univ.c' || echo './'`iit-write-univ.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-iit-write.o `test -f 'iit-write.c' || echo './'`iit-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-tableint.o `test -f 'tableint.c' || echo './'`tableint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-table.o `test -f 'table.c' || echo './'`table.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-chrom.o `test -f 'chrom.c' || echo './'`chrom.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_store-iit_store.o `test -f 'iit_store.c' || echo './'`iit_store.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-filestring.o `test -f 'filestring.c' || echo './'`filestring.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-parserange.o `test -f 'parserange.c' || echo './'`parserange.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_get-iit_get.o `test -f 'iit_get.c' || echo './'`iit_get.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-filestring.o `test -f 'filestring.c' || echo './'`filestring.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o iit_dump-iit_dump.o `test -f 'iit_dump.c' || echo './'`iit_dump.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap-cpuid.o `test -f 'cpuid.c' || echo './'`cpuid.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap-gsnap_select.o `test -f 'gsnap_select.c' || echo './'`gsnap_select.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl-cpuid.o `test -f 'cpuid.c' || echo './'`cpuid.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl-gsnapl_select.o `test -f 'gsnapl_select.c' || echo './'`gsnapl_select.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-filestring.o `test -f 'filestring.c' || echo './'`filestring.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-compress.o `test -f 'compress.c' || echo './'`compress.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-compress-write.o `test -f 'compress-write.c' || echo './'`compress-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-popcount.o `test -f 'popcount.c' || echo './'`popcount.c In file included from compress-write.c:21: compress-write.c: In function 'Compress_cat': littleendian.h:26:29: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 26 | #define FREAD_UINTS(a,n,fp) fread(a,sizeof(UINT4),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ compress-write.c:877:5: note: in expansion of macro 'FREAD_UINTS' 877 | FREAD_UINTS(Buffer,3,fp); | ^~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-genome128_hr.o `test -f 'genome128_hr.c' || echo './'`genome128_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-genome128_consec.o `test -f 'genome128_consec.c' || echo './'`genome128_consec.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-bitpack64-read.o `test -f 'bitpack64-read.c' || echo './'`bitpack64-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-bitpack64-readtwo.o `test -f 'bitpack64-readtwo.c' || echo './'`bitpack64-readtwo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-bitpack64-access.o `test -f 'bitpack64-access.c' || echo './'`bitpack64-access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-bitpack64-incr.o `test -f 'bitpack64-incr.c' || echo './'`bitpack64-incr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-bitpack64-write.o `test -f 'bitpack64-write.c' || echo './'`bitpack64-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-indexdb.o `test -f 'indexdb.c' || echo './'`indexdb.c indexdb.c: In function 'Indexdb_get_filenames_bitpack': indexdb.c:933:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 933 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 934 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int indexdb.c: In function 'positions_read_multiple': indexdb.c:1951:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1951 | read(positions_fd,buffer,4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-indexdb-write.o `test -f 'indexdb-write.c' || echo './'`indexdb-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-chrom.o `test -f 'chrom.c' || echo './'`chrom.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-md5.o `test -f 'md5.c' || echo './'`md5.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-sequence.o `test -f 'sequence.c' || echo './'`sequence.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-genome.o `test -f 'genome.c' || echo './'`genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o snpindex-snpindex.o `test -f 'snpindex.c' || echo './'`snpindex.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-filestring.o `test -f 'filestring.c' || echo './'`filestring.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-compress.o `test -f 'compress.c' || echo './'`compress.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-compress-write.o `test -f 'compress-write.c' || echo './'`compress-write.c In file included from compress-write.c:21: compress-write.c: In function 'Compress_cat': littleendian.h:26:29: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 26 | #define FREAD_UINTS(a,n,fp) fread(a,sizeof(UINT4),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ compress-write.c:877:5: note: in expansion of macro 'FREAD_UINTS' 877 | FREAD_UINTS(Buffer,3,fp); | ^~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-popcount.o `test -f 'popcount.c' || echo './'`popcount.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-genome128_hr.o `test -f 'genome128_hr.c' || echo './'`genome128_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-genome128_consec.o `test -f 'genome128_consec.c' || echo './'`genome128_consec.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-bitpack64-read.o `test -f 'bitpack64-read.c' || echo './'`bitpack64-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-bitpack64-readtwo.o `test -f 'bitpack64-readtwo.c' || echo './'`bitpack64-readtwo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-bitpack64-access.o `test -f 'bitpack64-access.c' || echo './'`bitpack64-access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-bitpack64-incr.o `test -f 'bitpack64-incr.c' || echo './'`bitpack64-incr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-bitpack64-write.o `test -f 'bitpack64-write.c' || echo './'`bitpack64-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-indexdb.o `test -f 'indexdb.c' || echo './'`indexdb.c indexdb.c: In function 'Indexdb_get_filenames_bitpack': indexdb.c:933:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 933 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 934 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int indexdb.c: In function 'positions_read_multiple': indexdb.c:1951:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1951 | read(positions_fd,buffer,4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-indexdb-write.o `test -f 'indexdb-write.c' || echo './'`indexdb-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-regiondb-write.o `test -f 'regiondb-write.c' || echo './'`regiondb-write.c In file included from regiondb-write.c:19: regiondb-write.c: In function 'Region_read': littleendian.h:22:31: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 22 | #define FREAD_USHORTS(a,n,fp) fread(a,sizeof(UINT2),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ regiondb-write.c:478:3: note: in expansion of macro 'FREAD_USHORTS' 478 | FREAD_USHORTS(buffer->offsets,offsets_size,fp); | ^~~~~~~~~~~~~ littleendian.h:22:31: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 22 | #define FREAD_USHORTS(a,n,fp) fread(a,sizeof(UINT2),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ regiondb-write.c:479:3: note: in expansion of macro 'FREAD_USHORTS' 479 | FREAD_USHORTS(buffer->positions,REGION_LENGTH,fp); | ^~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-cmet.o `test -f 'cmet.c' || echo './'`cmet.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-md5.o `test -f 'md5.c' || echo './'`md5.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-sequence.o `test -f 'sequence.c' || echo './'`sequence.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-genome.o `test -f 'genome.c' || echo './'`genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-uint8list.o `test -f 'uint8list.c' || echo './'`uint8list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cmetindex-cmetindex.o `test -f 'cmetindex.c' || echo './'`cmetindex.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-filestring.o `test -f 'filestring.c' || echo './'`filestring.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-compress.o `test -f 'compress.c' || echo './'`compress.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-compress-write.o `test -f 'compress-write.c' || echo './'`compress-write.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ In file included from compress-write.c:21: compress-write.c: In function 'Compress_cat': littleendian.h:26:29: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 26 | #define FREAD_UINTS(a,n,fp) fread(a,sizeof(UINT4),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ compress-write.c:877:5: note: in expansion of macro 'FREAD_UINTS' 877 | FREAD_UINTS(Buffer,3,fp); | ^~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-popcount.o `test -f 'popcount.c' || echo './'`popcount.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-genome128_hr.o `test -f 'genome128_hr.c' || echo './'`genome128_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-genome128_consec.o `test -f 'genome128_consec.c' || echo './'`genome128_consec.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-bitpack64-read.o `test -f 'bitpack64-read.c' || echo './'`bitpack64-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-bitpack64-readtwo.o `test -f 'bitpack64-readtwo.c' || echo './'`bitpack64-readtwo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-bitpack64-access.o `test -f 'bitpack64-access.c' || echo './'`bitpack64-access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-bitpack64-incr.o `test -f 'bitpack64-incr.c' || echo './'`bitpack64-incr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-bitpack64-write.o `test -f 'bitpack64-write.c' || echo './'`bitpack64-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-indexdb.o `test -f 'indexdb.c' || echo './'`indexdb.c indexdb.c: In function 'Indexdb_get_filenames_bitpack': indexdb.c:933:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 933 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 934 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int indexdb.c: In function 'positions_read_multiple': indexdb.c:1951:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1951 | read(positions_fd,buffer,4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-indexdb-write.o `test -f 'indexdb-write.c' || echo './'`indexdb-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-regiondb-write.o `test -f 'regiondb-write.c' || echo './'`regiondb-write.c In file included from regiondb-write.c:19: regiondb-write.c: In function 'Region_read': littleendian.h:22:31: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 22 | #define FREAD_USHORTS(a,n,fp) fread(a,sizeof(UINT2),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ regiondb-write.c:478:3: note: in expansion of macro 'FREAD_USHORTS' 478 | FREAD_USHORTS(buffer->offsets,offsets_size,fp); | ^~~~~~~~~~~~~ littleendian.h:22:31: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 22 | #define FREAD_USHORTS(a,n,fp) fread(a,sizeof(UINT2),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ regiondb-write.c:479:3: note: in expansion of macro 'FREAD_USHORTS' 479 | FREAD_USHORTS(buffer->positions,REGION_LENGTH,fp); | ^~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-atoi.o `test -f 'atoi.c' || echo './'`atoi.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-md5.o `test -f 'md5.c' || echo './'`md5.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-sequence.o `test -f 'sequence.c' || echo './'`sequence.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-genome.o `test -f 'genome.c' || echo './'`genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-uint8list.o `test -f 'uint8list.c' || echo './'`uint8list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o atoiindex-atoiindex.o `test -f 'atoiindex.c' || echo './'`atoiindex.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-access.o `test -f 'access.c' || echo './'`access.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-filestring.o `test -f 'filestring.c' || echo './'`filestring.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-bitpack64-access.o `test -f 'bitpack64-access.c' || echo './'`bitpack64-access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-bitpack64-write.o `test -f 'bitpack64-write.c' || echo './'`bitpack64-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o trindex-trindex.o `test -f 'trindex.c' || echo './'`trindex.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-filestring.o `test -f 'filestring.c' || echo './'`filestring.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-samheader.o `test -f 'samheader.c' || echo './'`samheader.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ samheader.c: In function 'SAM_header_change_HD_tosorted': samheader.c:231:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 231 | fread(buffer,sizeof(char),CHUNK,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ samheader.c:236:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 236 | fread(buffer,sizeof(char),headerlen,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-samread.o `test -f 'samread.c' || echo './'`samread.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c samread.c: In function 'Samread_flag_duplicate': samread.c:1076:29: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] 1076 | sprintf(newflag_string,"%u",flag | DUPLICATE_READ); | ^ In file included from /usr/include/stdio.h:906, from samread.c:6: In function 'sprintf', inlined from 'Samread_flag_duplicate' at samread.c:1076:3: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 5 and 11 bytes into a destination of size 10 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sam_sort-sam_sort.o `test -f 'sam_sort.c' || echo './'`sam_sort.c sam_sort.c: In function 'process_no_dedup': sam_sort.c:1393:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | fgets(line,linelen+1,fp_sam); /* Will read linelen characters with '\n' and then '\0' */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ sam_sort.c: In function 'print_results': sam_sort.c:1009:15: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1009 | fgets(line,linelen+1,fp_sam); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ sam_sort.c:1026:15: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1026 | fgets(line,linelen+1,fp_sam); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ sam_sort.c: In function 'read_sam_files_for_hashseq': sam_sort.c:1602:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1602 | fgets(line,linelen+1,fp_sam); /* Will read linelen characters with '\n' and then '\0' */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-filestring.o `test -f 'filestring.c' || echo './'`filestring.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-md5.o `test -f 'md5.c' || echo './'`md5.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-sequence.o `test -f 'sequence.c' || echo './'`sequence.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-reader.o `test -f 'reader.c' || echo './'`reader.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-compress.o `test -f 'compress.c' || echo './'`compress.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-compress-write.o `test -f 'compress-write.c' || echo './'`compress-write.c In file included from compress-write.c:21: compress-write.c: In function 'Compress_cat': littleendian.h:26:29: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 26 | #define FREAD_UINTS(a,n,fp) fread(a,sizeof(UINT4),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ compress-write.c:877:5: note: in expansion of macro 'FREAD_UINTS' 877 | FREAD_UINTS(Buffer,3,fp); | ^~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-gbuffer.o `test -f 'gbuffer.c' || echo './'`gbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-genome.o `test -f 'genome.c' || echo './'`genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-popcount.o `test -f 'popcount.c' || echo './'`popcount.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-dinucl_bits.o `test -f 'dinucl_bits.c' || echo './'`dinucl_bits.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-genome_canonical.o `test -f 'genome_canonical.c' || echo './'`genome_canonical.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-genome-write.o `test -f 'genome-write.c' || echo './'`genome-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-bitpack64-read.o `test -f 'bitpack64-read.c' || echo './'`bitpack64-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-bitpack64-readtwo.o `test -f 'bitpack64-readtwo.c' || echo './'`bitpack64-readtwo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-indexdb.o `test -f 'indexdb.c' || echo './'`indexdb.c indexdb.c: In function 'Indexdb_get_filenames_bitpack': indexdb.c:933:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 933 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 934 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int indexdb.c: In function 'positions_read_multiple': indexdb.c:1951:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1951 | read(positions_fd,buffer,4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-oligo.o `test -f 'oligo.c' || echo './'`oligo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-block.o `test -f 'block.c' || echo './'`block.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-chrom.o `test -f 'chrom.c' || echo './'`chrom.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-segmentpos.o `test -f 'segmentpos.c' || echo './'`segmentpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-chrnum.o `test -f 'chrnum.c' || echo './'`chrnum.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-uinttable_rh.o `test -f 'uinttable_rh.c' || echo './'`uinttable_rh.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-gregion.o `test -f 'gregion.c' || echo './'`gregion.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-match.o `test -f 'match.c' || echo './'`match.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-matchpool.o `test -f 'matchpool.c' || echo './'`matchpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-diagnostic.o `test -f 'diagnostic.c' || echo './'`diagnostic.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-stage1.o `test -f 'stage1.c' || echo './'`stage1.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-diag.o `test -f 'diag.c' || echo './'`diag.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-diagpool.o `test -f 'diagpool.c' || echo './'`diagpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-cmet.o `test -f 'cmet.c' || echo './'`cmet.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-atoi.o `test -f 'atoi.c' || echo './'`atoi.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-orderstat.o `test -f 'orderstat.c' || echo './'`orderstat.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-oligoindex_hr.o `test -f 'oligoindex_hr.c' || echo './'`oligoindex_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-intron.o `test -f 'intron.c' || echo './'`intron.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-maxent.o `test -f 'maxent.c' || echo './'`maxent.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-maxent_hr.o `test -f 'maxent_hr.c' || echo './'`maxent_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-pair.o `test -f 'pair.c' || echo './'`pair.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-pairpool.o `test -f 'pairpool.c' || echo './'`pairpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-cellpool.o `test -f 'cellpool.c' || echo './'`cellpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-stage2.o `test -f 'stage2.c' || echo './'`stage2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-doublelist.o `test -f 'doublelist.c' || echo './'`doublelist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-smooth.o `test -f 'smooth.c' || echo './'`smooth.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-splicestringpool.o `test -f 'splicestringpool.c' || echo './'`splicestringpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-splicetrie_build.o `test -f 'splicetrie_build.c' || echo './'`splicetrie_build.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-splicetrie.o `test -f 'splicetrie.c' || echo './'`splicetrie.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-boyer-moore.o `test -f 'boyer-moore.c' || echo './'`boyer-moore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-dynprog.o `test -f 'dynprog.c' || echo './'`dynprog.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-dynprog_simd.o `test -f 'dynprog_simd.c' || echo './'`dynprog_simd.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-dynprog_single.o `test -f 'dynprog_single.c' || echo './'`dynprog_single.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-dynprog_genome.o `test -f 'dynprog_genome.c' || echo './'`dynprog_genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-dynprog_cdna.o `test -f 'dynprog_cdna.c' || echo './'`dynprog_cdna.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-dynprog_end.o `test -f 'dynprog_end.c' || echo './'`dynprog_end.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-translation.o `test -f 'translation.c' || echo './'`translation.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-pbinom.o `test -f 'pbinom.c' || echo './'`pbinom.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-changepoint.o `test -f 'changepoint.c' || echo './'`changepoint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-stage3.o `test -f 'stage3.c' || echo './'`stage3.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-request.o `test -f 'request.c' || echo './'`request.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-result.o `test -f 'result.c' || echo './'`result.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-output.o `test -f 'output.c' || echo './'`output.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-inbuffer.o `test -f 'inbuffer.c' || echo './'`inbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-samheader.o `test -f 'samheader.c' || echo './'`samheader.c samheader.c: In function 'SAM_header_change_HD_tosorted': samheader.c:231:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 231 | fread(buffer,sizeof(char),CHUNK,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ samheader.c:236:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 236 | fread(buffer,sizeof(char),headerlen,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-printbuffer.o `test -f 'printbuffer.c' || echo './'`printbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-outbuffer.o `test -f 'outbuffer.c' || echo './'`outbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-chimera.o `test -f 'chimera.c' || echo './'`chimera.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmap_nosimd-gmap.o `test -f 'gmap.c' || echo './'`gmap.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-uint8list.o `test -f 'uint8list.c' || echo './'`uint8list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-access.o `test -f 'access.c' || echo './'`access.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-filestring.o `test -f 'filestring.c' || echo './'`filestring.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-md5.o `test -f 'md5.c' || echo './'`md5.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-sequence.o `test -f 'sequence.c' || echo './'`sequence.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-reader.o `test -f 'reader.c' || echo './'`reader.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-compress.o `test -f 'compress.c' || echo './'`compress.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-compress-write.o `test -f 'compress-write.c' || echo './'`compress-write.c In file included from compress-write.c:21: compress-write.c: In function 'Compress_cat': littleendian.h:26:29: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 26 | #define FREAD_UINTS(a,n,fp) fread(a,sizeof(UINT4),n,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ compress-write.c:877:5: note: in expansion of macro 'FREAD_UINTS' 877 | FREAD_UINTS(Buffer,3,fp); | ^~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-gbuffer.o `test -f 'gbuffer.c' || echo './'`gbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-genome.o `test -f 'genome.c' || echo './'`genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-popcount.o `test -f 'popcount.c' || echo './'`popcount.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-dinucl_bits.o `test -f 'dinucl_bits.c' || echo './'`dinucl_bits.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-genome_canonical.o `test -f 'genome_canonical.c' || echo './'`genome_canonical.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-genome-write.o `test -f 'genome-write.c' || echo './'`genome-write.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-bitpack64-read.o `test -f 'bitpack64-read.c' || echo './'`bitpack64-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-bitpack64-readtwo.o `test -f 'bitpack64-readtwo.c' || echo './'`bitpack64-readtwo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-indexdb.o `test -f 'indexdb.c' || echo './'`indexdb.c indexdb.c: In function 'Indexdb_get_filenames_bitpack': indexdb.c:933:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 933 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 934 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int indexdb.c: In function 'positions_read_multiple_large': indexdb.c:1895:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1895 | read(positions_high_fd,buffer,1); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ indexdb.c:1899:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1899 | read(positions_fd,buffer,4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-oligo.o `test -f 'oligo.c' || echo './'`oligo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-block.o `test -f 'block.c' || echo './'`block.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-chrom.o `test -f 'chrom.c' || echo './'`chrom.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-segmentpos.o `test -f 'segmentpos.c' || echo './'`segmentpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-chrnum.o `test -f 'chrnum.c' || echo './'`chrnum.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-uinttable_rh.o `test -f 'uinttable_rh.c' || echo './'`uinttable_rh.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-gregion.o `test -f 'gregion.c' || echo './'`gregion.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-match.o `test -f 'match.c' || echo './'`match.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-matchpool.o `test -f 'matchpool.c' || echo './'`matchpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-diagnostic.o `test -f 'diagnostic.c' || echo './'`diagnostic.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-stage1.o `test -f 'stage1.c' || echo './'`stage1.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-diag.o `test -f 'diag.c' || echo './'`diag.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-diagpool.o `test -f 'diagpool.c' || echo './'`diagpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-cmet.o `test -f 'cmet.c' || echo './'`cmet.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-atoi.o `test -f 'atoi.c' || echo './'`atoi.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-orderstat.o `test -f 'orderstat.c' || echo './'`orderstat.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-oligoindex_hr.o `test -f 'oligoindex_hr.c' || echo './'`oligoindex_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-intron.o `test -f 'intron.c' || echo './'`intron.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-maxent.o `test -f 'maxent.c' || echo './'`maxent.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-maxent_hr.o `test -f 'maxent_hr.c' || echo './'`maxent_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-pair.o `test -f 'pair.c' || echo './'`pair.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-pairpool.o `test -f 'pairpool.c' || echo './'`pairpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-cellpool.o `test -f 'cellpool.c' || echo './'`cellpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-stage2.o `test -f 'stage2.c' || echo './'`stage2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-doublelist.o `test -f 'doublelist.c' || echo './'`doublelist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-smooth.o `test -f 'smooth.c' || echo './'`smooth.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-splicestringpool.o `test -f 'splicestringpool.c' || echo './'`splicestringpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-splicetrie_build.o `test -f 'splicetrie_build.c' || echo './'`splicetrie_build.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-splicetrie.o `test -f 'splicetrie.c' || echo './'`splicetrie.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-boyer-moore.o `test -f 'boyer-moore.c' || echo './'`boyer-moore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-dynprog.o `test -f 'dynprog.c' || echo './'`dynprog.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-dynprog_simd.o `test -f 'dynprog_simd.c' || echo './'`dynprog_simd.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-dynprog_single.o `test -f 'dynprog_single.c' || echo './'`dynprog_single.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-dynprog_genome.o `test -f 'dynprog_genome.c' || echo './'`dynprog_genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-dynprog_cdna.o `test -f 'dynprog_cdna.c' || echo './'`dynprog_cdna.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-dynprog_end.o `test -f 'dynprog_end.c' || echo './'`dynprog_end.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-translation.o `test -f 'translation.c' || echo './'`translation.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-pbinom.o `test -f 'pbinom.c' || echo './'`pbinom.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-changepoint.o `test -f 'changepoint.c' || echo './'`changepoint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-stage3.o `test -f 'stage3.c' || echo './'`stage3.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-request.o `test -f 'request.c' || echo './'`request.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-result.o `test -f 'result.c' || echo './'`result.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-output.o `test -f 'output.c' || echo './'`output.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-inbuffer.o `test -f 'inbuffer.c' || echo './'`inbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-samheader.o `test -f 'samheader.c' || echo './'`samheader.c samheader.c: In function 'SAM_header_change_HD_tosorted': samheader.c:231:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 231 | fread(buffer,sizeof(char),CHUNK,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ samheader.c:236:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 236 | fread(buffer,sizeof(char),headerlen,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-printbuffer.o `test -f 'printbuffer.c' || echo './'`printbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-outbuffer.o `test -f 'outbuffer.c' || echo './'`outbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-chimera.o `test -f 'chimera.c' || echo './'`chimera.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gmapl_nosimd-gmap.o `test -f 'gmap.c' || echo './'`gmap.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-access.o `test -f 'access.c' || echo './'`access.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-filestring.o `test -f 'filestring.c' || echo './'`filestring.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-reader.o `test -f 'reader.c' || echo './'`reader.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-compress.o `test -f 'compress.c' || echo './'`compress.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-genome.o `test -f 'genome.c' || echo './'`genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-transcriptome.o `test -f 'transcriptome.c' || echo './'`transcriptome.c In file included from transcriptome.c:28: transcriptome.c: In function 'Transcriptome_new': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ transcriptome.c:132:5: note: in expansion of macro 'FREAD_INT' 132 | FREAD_INT(&divint,fp); | ^~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-popcount.o `test -f 'popcount.c' || echo './'`popcount.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-genome128_hr.o `test -f 'genome128_hr.c' || echo './'`genome128_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-genome128_consec.o `test -f 'genome128_consec.c' || echo './'`genome128_consec.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-dinucl_bits.o `test -f 'dinucl_bits.c' || echo './'`dinucl_bits.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-genome_sites.o `test -f 'genome_sites.c' || echo './'`genome_sites.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-bitpack64-read.o `test -f 'bitpack64-read.c' || echo './'`bitpack64-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-bitpack64-readtwo.o `test -f 'bitpack64-readtwo.c' || echo './'`bitpack64-readtwo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-mergeinfo.o `test -f 'mergeinfo.c' || echo './'`mergeinfo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-merge-uint4.o `test -f 'merge-uint4.c' || echo './'`merge-uint4.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-merge-diagonals-simd-uint4.o `test -f 'merge-diagonals-simd-uint4.c' || echo './'`merge-diagonals-simd-uint4.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-indexdb.o `test -f 'indexdb.c' || echo './'`indexdb.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-regiondb.o `test -f 'regiondb.c' || echo './'`regiondb.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-oligo.o `test -f 'oligo.c' || echo './'`oligo.c indexdb.c: In function 'Indexdb_get_filenames_bitpack': indexdb.c:933:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 933 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 934 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int regiondb.c: In function 'Regiondb_get_filenames': regiondb.c:1646:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 1646 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 1647 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int indexdb.c: In function 'positions_read_multiple': indexdb.c:1951:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1951 | read(positions_fd,buffer,4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-chrnum.o `test -f 'chrnum.c' || echo './'`chrnum.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-maxent_hr.o `test -f 'maxent_hr.c' || echo './'`maxent_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-mdprint.o `test -f 'mdprint.c' || echo './'`mdprint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-cigar.o `test -f 'cigar.c' || echo './'`cigar.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-samprint.o `test -f 'samprint.c' || echo './'`samprint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-mapq.o `test -f 'mapq.c' || echo './'`mapq.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-shortread.o `test -f 'shortread.c' || echo './'`shortread.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-substring.o `test -f 'substring.c' || echo './'`substring.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-junction.o `test -f 'junction.c' || echo './'`junction.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-exon.o `test -f 'exon.c' || echo './'`exon.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-doublelist.o `test -f 'doublelist.c' || echo './'`doublelist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-bitvector.o `test -f 'bitvector.c' || echo './'`bitvector.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-transcript.o `test -f 'transcript.c' || echo './'`transcript.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-method.o `test -f 'method.c' || echo './'`method.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-stage3hr.o `test -f 'stage3hr.c' || echo './'`stage3hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-ladder.o `test -f 'ladder.c' || echo './'`ladder.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-concordance.o `test -f 'concordance.c' || echo './'`concordance.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-simplepair.o `test -f 'simplepair.c' || echo './'`simplepair.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-maxent.o `test -f 'maxent.c' || echo './'`maxent.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-orderstat.o `test -f 'orderstat.c' || echo './'`orderstat.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-intlistpool.o `test -f 'intlistpool.c' || echo './'`intlistpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-uintlistpool.o `test -f 'uintlistpool.c' || echo './'`uintlistpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-listpool.o `test -f 'listpool.c' || echo './'`listpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-hitlistpool.o `test -f 'hitlistpool.c' || echo './'`hitlistpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-intron.o `test -f 'intron.c' || echo './'`intron.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-gbuffer.o `test -f 'gbuffer.c' || echo './'`gbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-knownsplicing.o `test -f 'knownsplicing.c' || echo './'`knownsplicing.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-splice.o `test -f 'splice.c' || echo './'`splice.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-indel.o `test -f 'indel.c' || echo './'`indel.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-bitpack64-access.o `test -f 'bitpack64-access.c' || echo './'`bitpack64-access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-univdiag.o `test -f 'univdiag.c' || echo './'`univdiag.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-univdiagpool.o `test -f 'univdiagpool.c' || echo './'`univdiagpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-sedgesort.o `test -f 'sedgesort.c' || echo './'`sedgesort.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-intersect.o `test -f 'intersect.c' || echo './'`intersect.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-kmer-search.o `test -f 'kmer-search.c' || echo './'`kmer-search.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-path-solve.o `test -f 'path-solve.c' || echo './'`path-solve.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-extension-search.o `test -f 'extension-search.c' || echo './'`extension-search.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-segment-search.o `test -f 'segment-search.c' || echo './'`segment-search.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-terminal.o `test -f 'terminal.c' || echo './'`terminal.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-distant-rna.o `test -f 'distant-rna.c' || echo './'`distant-rna.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-distant-dna.o `test -f 'distant-dna.c' || echo './'`distant-dna.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-uint8table_rh.o `test -f 'uint8table_rh.c' || echo './'`uint8table_rh.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-uinttable_rh.o `test -f 'uinttable_rh.c' || echo './'`uinttable_rh.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-stage1hr.o `test -f 'stage1hr.c' || echo './'`stage1hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-tableuint.o `test -f 'tableuint.c' || echo './'`tableuint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-single-cell.o `test -f 'single-cell.c' || echo './'`single-cell.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-request.o `test -f 'request.c' || echo './'`request.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-resulthr.o `test -f 'resulthr.c' || echo './'`resulthr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-output.o `test -f 'output.c' || echo './'`output.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-inbuffer.o `test -f 'inbuffer.c' || echo './'`inbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-samheader.o `test -f 'samheader.c' || echo './'`samheader.c samheader.c: In function 'SAM_header_change_HD_tosorted': samheader.c:231:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 231 | fread(buffer,sizeof(char),CHUNK,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ samheader.c:236:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 236 | fread(buffer,sizeof(char),headerlen,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-printbuffer.o `test -f 'printbuffer.c' || echo './'`printbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-outbuffer.o `test -f 'outbuffer.c' || echo './'`outbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnap_nosimd-gsnap.o `test -f 'gsnap.c' || echo './'`gsnap.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-except.o `test -f 'except.c' || echo './'`except.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-assert.o `test -f 'assert.c' || echo './'`assert.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-mem.o `test -f 'mem.c' || echo './'`mem.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-intlist.o `test -f 'intlist.c' || echo './'`intlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-uintlist.o `test -f 'uintlist.c' || echo './'`uintlist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-uint8list.o `test -f 'uint8list.c' || echo './'`uint8list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-list.o `test -f 'list.c' || echo './'`list.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-littleendian.o `test -f 'littleendian.c' || echo './'`littleendian.c littleendian.c: In function 'Littleendian_write_char': littleendian.c:14:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 14 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint': littleendian.c:27:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 27 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8': littleendian.c:45:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 45 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ littleendian.c: In function 'Littleendian_write_uint8_as_uint': littleendian.c:60:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 60 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ littleendian.c:66:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-bigendian.o `test -f 'bigendian.c' || echo './'`bigendian.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-univinterval.o `test -f 'univinterval.c' || echo './'`univinterval.c bigendian.c: In function 'Bigendian_write_char': bigendian.c:16:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 16 | write(fd,buf,1); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint': bigendian.c:215:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 215 | write(fd,buf,4); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint': bigendian.c:299:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | read(fd,buf,4); | ^~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_write_uint8': bigendian.c:367:3: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 367 | write(fd,buf,8); | ^~~~~~~~~~~~~~~ bigendian.c: In function 'Bigendian_fileio_read_uint8': bigendian.c:484:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 484 | read(fd,buf,8); | ^~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-interval.o `test -f 'interval.c' || echo './'`interval.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-stopwatch.o `test -f 'stopwatch.c' || echo './'`stopwatch.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-semaphore.o `test -f 'semaphore.c' || echo './'`semaphore.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-access.o `test -f 'access.c' || echo './'`access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-filestring.o `test -f 'filestring.c' || echo './'`filestring.c access.c: In function 'Access_allocate_shared': access.c:888:93: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 888 | fprintf(stderr,"shm_attach not working on file %s, so using memory mapping instead on %lu bytes\n", | ~~^ | | | long unsigned int | %u 889 | filename,*len); | ~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap': access.c:1015:88: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1015 | fprintf(stderr,"Error in access.c (1): Got mmap failure on file %s with length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1016 | filename,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_offset': access.c:1087:82: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c:1087:94: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1087 | fprintf(stderr,"Error in access.c (2): Got mmap failure on fd %d, offset %jd, length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1088 | fd,offset,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'Access_mmap_and_preload': access.c:1320:85: warning: format '%jd' expects argument of type 'intmax_t', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~ | | | size_t {aka unsigned int} access.c:1320:101: warning: format '%jd' expects argument of type 'intmax_t', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 1320 | fprintf(stderr,"Error in access.c (5): Got mmap failure on file %s with len %jd from length %jd. Error %d: %s\n", | ~~^ | | | long long int | %d 1321 | filename,*len,length,errno,strerror(errno)); | ~~~~~~ | | | size_t {aka unsigned int} access.c: In function 'copy_memory_from_file': access.c:532:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 532 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:537:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fread(p,sizeof(unsigned char),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:543:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 543 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:548:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 548 | fread(p,sizeof(UINT2),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:554:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:559:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 559 | fread(p,sizeof(UINT4),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:565:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 565 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:570:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 570 | fread(p,sizeof(UINT8),filesize/eltsize - i,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c: In function 'copy_limited_from_file': access.c:596:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 596 | fread(p,sizeof(unsigned char),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:598:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 598 | fread(p,sizeof(unsigned char),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:604:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 604 | fread(p,sizeof(UINT2),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:606:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 606 | fread(p,sizeof(UINT2),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:612:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 612 | fread(p,sizeof(UINT4),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:614:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 614 | fread(p,sizeof(UINT4),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:620:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 620 | fread(p,sizeof(UINT8),FREAD_BATCH,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ access.c:622:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 622 | fread(p,sizeof(UINT8),filesize/eltsize,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-iit-read-univ.o `test -f 'iit-read-univ.c' || echo './'`iit-read-univ.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-iit-read.o `test -f 'iit-read.c' || echo './'`iit-read.c In file included from iit-read-univ.c:12: iit-read-univ.c: In function 'read_tree_univ': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1068:9: note: in expansion of macro 'FREAD_UINT' 1068 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1070:9: note: in expansion of macro 'FREAD_INT' 1070 | FREAD_INT(&(new->nodes[i].a),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1071:9: note: in expansion of macro 'FREAD_INT' 1071 | FREAD_INT(&(new->nodes[i].b),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1072:9: note: in expansion of macro 'FREAD_INT' 1072 | FREAD_INT(&(new->nodes[i].leftindex),fp); | ^~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1073:9: note: in expansion of macro 'FREAD_INT' 1073 | FREAD_INT(&(new->nodes[i].rightindex),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_intervals_univ': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1121:7: note: in expansion of macro 'FREAD_UINT8' 1121 | FREAD_UINT8(&(new->intervals[i].low),fp); | ^~~~~~~~~~~ littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1122:7: note: in expansion of macro 'FREAD_UINT8' 1122 | FREAD_UINT8(&(new->intervals[i].high),fp); | ^~~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1123:7: note: in expansion of macro 'FREAD_INT' 1123 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1132:7: note: in expansion of macro 'FREAD_UINT' 1132 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1134:7: note: in expansion of macro 'FREAD_UINT' 1134 | FREAD_UINT(&uint4,fp); | ^~~~~~~~~~ littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1136:7: note: in expansion of macro 'FREAD_INT' 1136 | FREAD_INT(&(new->intervals[i].type),fp); | ^~~~~~~~~ iit-read-univ.c: In function 'read_words': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1196:3: note: in expansion of macro 'FREAD_UINT' 1196 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read-univ.c: In function 'read_annotations': iit-read-univ.c:1389:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1389 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1393:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1393 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1397:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1397 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1401:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1401 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1405:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1405 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c: In function 'read_words_debug': littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read-univ.c:1278:3: note: in expansion of macro 'FREAD_UINT' 1278 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ In file included from iit-read.c:12: iit-read.c: In function 'IIT_read_divint': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2588:5: note: in expansion of macro 'FREAD_INT' 2588 | FREAD_INT(&version,fp); | ^~~~~~~~~ iit-read.c: In function 'IIT_read': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3103:5: note: in expansion of macro 'FREAD_INT' 3103 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_tree': iit-read.c:1760:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1760 | fread(&(new->nodes[divno][i].value),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1761:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1761 | fread(&(new->nodes[divno][i].a),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1762:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1762 | fread(&(new->nodes[divno][i].b),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1763:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1763 | fread(&(new->nodes[divno][i].leftindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1764:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1764 | fread(&(new->nodes[divno][i].rightindex),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_intervals': iit-read.c:1889:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1889 | fread(&(new->intervals[divno][i].low),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1890:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1890 | fread(&(new->intervals[divno][i].high),sizeof(unsigned int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1892:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1892 | fread(&(new->intervals[divno][i].sign),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:1896:7: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1896 | fread(&(new->intervals[divno][i].type),sizeof(int),1,fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'read_words': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2144:5: note: in expansion of macro 'FREAD_UINT8' 2144 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2150:5: note: in expansion of macro 'FREAD_UINT' 2150 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ iit-read.c: In function 'read_annotations': iit-read.c:2482:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2482 | read(new->fd,new->valueorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2486:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2486 | read(new->fd,new->values,new->value_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2491:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2491 | read(new->fd,new->labelorder,new->total_nintervals*sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2497:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2497 | read(new->fd,new->labelpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2502:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2502 | read(new->fd,new->labelpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2513:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2513 | read(new->fd,new->labels,new->label_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2519:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2519 | read(new->fd,new->annotpointers8,(new->total_nintervals+1)*sizeof(UINT8)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2524:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2524 | read(new->fd,new->annotpointers,(new->total_nintervals+1)*sizeof(UINT4)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2535:3: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 2535 | read(new->fd,new->annotations,new->annot_length*sizeof(char)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c: In function 'IIT_debug': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:3524:5: note: in expansion of macro 'FREAD_INT' 3524 | FREAD_INT(&new->version,fp); | ^~~~~~~~~ iit-read.c: In function 'read_words_debug': littleendian.h:29:27: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 29 | #define FREAD_UINT8(p,fp) fread(p,sizeof(UINT8),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2288:5: note: in expansion of macro 'FREAD_UINT8' 2288 | FREAD_UINT8(&length8,fp); | ^~~~~~~~~~~ littleendian.h:24:26: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 24 | #define FREAD_UINT(p,fp) fread(p,sizeof(UINT4),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ iit-read.c:2293:5: note: in expansion of macro 'FREAD_UINT' 2293 | FREAD_UINT(&length,fp); | ^~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-bzip2.o `test -f 'bzip2.c' || echo './'`bzip2.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-reader.o `test -f 'reader.c' || echo './'`reader.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-genomicpos.o `test -f 'genomicpos.c' || echo './'`genomicpos.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-compress.o `test -f 'compress.c' || echo './'`compress.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-genome.o `test -f 'genome.c' || echo './'`genome.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-transcriptome.o `test -f 'transcriptome.c' || echo './'`transcriptome.c In file included from transcriptome.c:28: transcriptome.c: In function 'Transcriptome_new': littleendian.h:23:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 23 | #define FREAD_INT(p,fp) fread(p,sizeof(int),1,fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~ transcriptome.c:132:5: note: in expansion of macro 'FREAD_INT' 132 | FREAD_INT(&divint,fp); | ^~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-popcount.o `test -f 'popcount.c' || echo './'`popcount.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-genome128_hr.o `test -f 'genome128_hr.c' || echo './'`genome128_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-genome128_consec.o `test -f 'genome128_consec.c' || echo './'`genome128_consec.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-dinucl_bits.o `test -f 'dinucl_bits.c' || echo './'`dinucl_bits.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-genome_sites.o `test -f 'genome_sites.c' || echo './'`genome_sites.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-bitpack64-read.o `test -f 'bitpack64-read.c' || echo './'`bitpack64-read.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-bitpack64-readtwo.o `test -f 'bitpack64-readtwo.c' || echo './'`bitpack64-readtwo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-mergeinfo.o `test -f 'mergeinfo.c' || echo './'`mergeinfo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-merge-diagonals-heap.o `test -f 'merge-diagonals-heap.c' || echo './'`merge-diagonals-heap.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-merge-uint8.o `test -f 'merge-uint8.c' || echo './'`merge-uint8.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-merge-diagonals-simd-uint8.o `test -f 'merge-diagonals-simd-uint8.c' || echo './'`merge-diagonals-simd-uint8.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-merge-uint4.o `test -f 'merge-uint4.c' || echo './'`merge-uint4.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-merge-diagonals-simd-uint4.o `test -f 'merge-diagonals-simd-uint4.c' || echo './'`merge-diagonals-simd-uint4.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-indexdb.o `test -f 'indexdb.c' || echo './'`indexdb.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-regiondb.o `test -f 'regiondb.c' || echo './'`regiondb.c indexdb.c: In function 'Indexdb_get_filenames_bitpack': indexdb.c:933:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 933 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 934 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int regiondb.c: In function 'Regiondb_get_filenames': regiondb.c:1646:92: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'int' [-Wformat=] 1646 | fprintf(stderr,"Cannot parse part between %s and offsets in filename %s: found %ld characters, expecting %d\n", | ~~^ | | | long int | %d 1647 | idx_filesuffix,filename,q-p,BASE_KMER_SAMPLING); | ~~~ | | | int indexdb.c: In function 'positions_read_multiple_large': indexdb.c:1895:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1895 | read(positions_high_fd,buffer,1); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ indexdb.c:1899:5: warning: ignoring return value of 'read' declared with attribute 'warn_unused_result' [-Wunused-result] 1899 | read(positions_fd,buffer,4); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-oligo.o `test -f 'oligo.c' || echo './'`oligo.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-chrnum.o `test -f 'chrnum.c' || echo './'`chrnum.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-maxent_hr.o `test -f 'maxent_hr.c' || echo './'`maxent_hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-mdprint.o `test -f 'mdprint.c' || echo './'`mdprint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-cigar.o `test -f 'cigar.c' || echo './'`cigar.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-samprint.o `test -f 'samprint.c' || echo './'`samprint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-mapq.o `test -f 'mapq.c' || echo './'`mapq.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-fopen.o `test -f 'fopen.c' || echo './'`fopen.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-shortread.o `test -f 'shortread.c' || echo './'`shortread.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-substring.o `test -f 'substring.c' || echo './'`substring.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-junction.o `test -f 'junction.c' || echo './'`junction.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-exon.o `test -f 'exon.c' || echo './'`exon.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-doublelist.o `test -f 'doublelist.c' || echo './'`doublelist.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-bitvector.o `test -f 'bitvector.c' || echo './'`bitvector.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-transcript.o `test -f 'transcript.c' || echo './'`transcript.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-method.o `test -f 'method.c' || echo './'`method.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-stage3hr.o `test -f 'stage3hr.c' || echo './'`stage3hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-ladder.o `test -f 'ladder.c' || echo './'`ladder.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-concordance.o `test -f 'concordance.c' || echo './'`concordance.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-simplepair.o `test -f 'simplepair.c' || echo './'`simplepair.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-maxent.o `test -f 'maxent.c' || echo './'`maxent.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-orderstat.o `test -f 'orderstat.c' || echo './'`orderstat.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-intlistpool.o `test -f 'intlistpool.c' || echo './'`intlistpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-uint8listpool.o `test -f 'uint8listpool.c' || echo './'`uint8listpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-listpool.o `test -f 'listpool.c' || echo './'`listpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-hitlistpool.o `test -f 'hitlistpool.c' || echo './'`hitlistpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-intron.o `test -f 'intron.c' || echo './'`intron.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-gbuffer.o `test -f 'gbuffer.c' || echo './'`gbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-knownsplicing.o `test -f 'knownsplicing.c' || echo './'`knownsplicing.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-splice.o `test -f 'splice.c' || echo './'`splice.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-indel.o `test -f 'indel.c' || echo './'`indel.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-bitpack64-access.o `test -f 'bitpack64-access.c' || echo './'`bitpack64-access.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-univdiag.o `test -f 'univdiag.c' || echo './'`univdiag.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-univdiagpool.o `test -f 'univdiagpool.c' || echo './'`univdiagpool.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-sedgesort.o `test -f 'sedgesort.c' || echo './'`sedgesort.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-intersect.o `test -f 'intersect.c' || echo './'`intersect.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-intersect-large.o `test -f 'intersect-large.c' || echo './'`intersect-large.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-kmer-search.o `test -f 'kmer-search.c' || echo './'`kmer-search.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-path-solve.o `test -f 'path-solve.c' || echo './'`path-solve.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-extension-search.o `test -f 'extension-search.c' || echo './'`extension-search.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-segment-search.o `test -f 'segment-search.c' || echo './'`segment-search.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-terminal.o `test -f 'terminal.c' || echo './'`terminal.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-distant-rna.o `test -f 'distant-rna.c' || echo './'`distant-rna.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-distant-dna.o `test -f 'distant-dna.c' || echo './'`distant-dna.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-uint8table_rh.o `test -f 'uint8table_rh.c' || echo './'`uint8table_rh.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-stage1hr.o `test -f 'stage1hr.c' || echo './'`stage1hr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-tableuint.o `test -f 'tableuint.c' || echo './'`tableuint.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-single-cell.o `test -f 'single-cell.c' || echo './'`single-cell.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-request.o `test -f 'request.c' || echo './'`request.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-resulthr.o `test -f 'resulthr.c' || echo './'`resulthr.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-output.o `test -f 'output.c' || echo './'`output.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-inbuffer.o `test -f 'inbuffer.c' || echo './'`inbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-samheader.o `test -f 'samheader.c' || echo './'`samheader.c samheader.c: In function 'SAM_header_change_HD_tosorted': samheader.c:231:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 231 | fread(buffer,sizeof(char),CHUNK,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ samheader.c:236:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 236 | fread(buffer,sizeof(char),headerlen,input); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-printbuffer.o `test -f 'printbuffer.c' || echo './'`printbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-outbuffer.o `test -f 'outbuffer.c' || echo './'`outbuffer.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-datadir.o `test -f 'datadir.c' || echo './'`datadir.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-parserange.o `test -f 'parserange.c' || echo './'`parserange.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-getline.o `test -f 'getline.c' || echo './'`getline.c gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gsnapl_nosimd-gsnap.o `test -f 'gsnap.c' || echo './'`gsnap.c gcc -DMAIN=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o cpuid cpuid-cpuid.o -lm gcc -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o gmap gmap-cpuid.o gmap-gmap_select.o -lm gcc -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o gmapl gmapl-cpuid.o gmapl-gmapl_select.o -lm gcc -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o get-genome get_genome-except.o get_genome-assert.o get_genome-mem.o get_genome-intlist.o get_genome-list.o get_genome-littleendian.o get_genome-bigendian.o get_genome-univinterval.o get_genome-interval.o get_genome-uintlist.o get_genome-stopwatch.o get_genome-semaphore.o get_genome-access.o get_genome-filestring.o get_genome-iit-read-univ.o get_genome-iit-read.o get_genome-md5.o get_genome-bzip2.o get_genome-fopen.o get_genome-sequence.o get_genome-genome.o get_genome-genomicpos.o get_genome-chrom.o get_genome-chrnum.o get_genome-datadir.o get_genome-parserange.o get_genome-getline.o get_genome-get-genome.o -lz -lbz2 -lm gcc -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o gmapindex gmapindex-except.o gmapindex-assert.o gmapindex-mem.o gmapindex-intlist.o gmapindex-list.o gmapindex-littleendian.o gmapindex-bigendian.o gmapindex-univinterval.o gmapindex-interval.o gmapindex-uintlist.o gmapindex-stopwatch.o gmapindex-semaphore.o gmapindex-access.o gmapindex-filestring.o gmapindex-iit-read-univ.o gmapindex-iit-write-univ.o gmapindex-iit-read.o gmapindex-md5.o gmapindex-bzip2.o gmapindex-fopen.o gmapindex-sequence.o gmapindex-genome.o gmapindex-genomicpos.o gmapindex-compress-write.o gmapindex-genome-write.o gmapindex-compress.o gmapindex-popcount.o gmapindex-genome128_hr.o gmapindex-genome128_consec.o gmapindex-bitpack64-read.o gmapindex-bitpack64-readtwo.o gmapindex-bitpack64-access.o gmapindex-bitpack64-incr.o gmapindex-bitpack64-write.o gmapindex-indexdb.o gmapindex-indexdb-write.o gmapindex-regiondb.o gmapindex-regiondb-write.o gmapindex-table.o gmapindex-tableuint.o gmapindex-tableuint8.o gmapindex-tableint.o gmapindex-chrom.o gmapindex-segmentpos.o gmapindex-uint8list.o gmapindex-parserange.o gmapindex-getline.o gmapindex-gmapindex.o -lz -lbz2 -lm gcc -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o indexdb_cat indexdb_cat-except.o indexdb_cat-assert.o indexdb_cat-mem.o indexdb_cat-littleendian.o indexdb_cat-bigendian.o indexdb_cat-genomicpos.o indexdb_cat-stopwatch.o indexdb_cat-semaphore.o indexdb_cat-access.o indexdb_cat-univinterval.o indexdb_cat-interval.o indexdb_cat-uintlist.o indexdb_cat-intlist.o indexdb_cat-list.o indexdb_cat-filestring.o indexdb_cat-iit-read-univ.o indexdb_cat-iit-read.o indexdb_cat-bitpack64-read.o indexdb_cat-bitpack64-readtwo.o indexdb_cat-bitpack64-access.o indexdb_cat-bitpack64-incr.o indexdb_cat-bitpack64-write.o indexdb_cat-indexdb.o indexdb_cat-indexdb-write.o indexdb_cat-compress-write.o indexdb_cat-bzip2.o indexdb_cat-fopen.o indexdb_cat-datadir.o indexdb_cat-parserange.o indexdb_cat-getline.o indexdb_cat-indexdb-cat.o -lz -lbz2 -lm gcc -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o iit_store iit_store-except.o iit_store-assert.o iit_store-mem.o iit_store-intlist.o iit_store-list.o iit_store-littleendian.o iit_store-bigendian.o iit_store-univinterval.o iit_store-interval.o iit_store-uintlist.o iit_store-stopwatch.o iit_store-semaphore.o iit_store-access.o iit_store-doublelist.o iit_store-iit-write-univ.o iit_store-iit-write.o iit_store-tableint.o iit_store-table.o iit_store-chrom.o iit_store-bzip2.o iit_store-getline.o iit_store-iit_store.o -lz -lbz2 -lm gcc -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o iit_get iit_get-except.o iit_get-assert.o iit_get-mem.o iit_get-intlist.o iit_get-list.o iit_get-littleendian.o iit_get-bigendian.o iit_get-univinterval.o iit_get-interval.o iit_get-uintlist.o iit_get-stopwatch.o iit_get-semaphore.o iit_get-access.o iit_get-filestring.o iit_get-iit-read-univ.o iit_get-iit-read.o iit_get-parserange.o iit_get-bzip2.o iit_get-getline.o iit_get-iit_get.o -lz -lbz2 -lm gcc -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o iit_dump iit_dump-except.o iit_dump-assert.o iit_dump-mem.o iit_dump-littleendian.o iit_dump-bigendian.o iit_dump-intlist.o iit_dump-list.o iit_dump-univinterval.o iit_dump-interval.o iit_dump-uintlist.o iit_dump-stopwatch.o iit_dump-semaphore.o iit_dump-access.o iit_dump-filestring.o iit_dump-iit-read-univ.o iit_dump-iit-read.o iit_dump-parserange.o iit_dump-iit_dump.o -lm gcc -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o gsnap gsnap-cpuid.o gsnap-gsnap_select.o -lm gcc -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o gsnapl gsnapl-cpuid.o gsnapl-gsnapl_select.o -lm gcc -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o snpindex snpindex-except.o snpindex-assert.o snpindex-mem.o snpindex-intlist.o snpindex-list.o snpindex-littleendian.o snpindex-bigendian.o snpindex-univinterval.o snpindex-interval.o snpindex-uintlist.o snpindex-stopwatch.o snpindex-semaphore.o snpindex-access.o snpindex-filestring.o snpindex-iit-read-univ.o snpindex-iit-read.o snpindex-genomicpos.o snpindex-compress.o snpindex-compress-write.o snpindex-popcount.o snpindex-genome128_hr.o snpindex-genome128_consec.o snpindex-bitpack64-read.o snpindex-bitpack64-readtwo.o snpindex-bitpack64-access.o snpindex-bitpack64-incr.o snpindex-bitpack64-write.o snpindex-indexdb.o snpindex-indexdb-write.o snpindex-chrom.o snpindex-md5.o snpindex-bzip2.o snpindex-fopen.o snpindex-sequence.o snpindex-genome.o snpindex-datadir.o snpindex-parserange.o snpindex-getline.o snpindex-snpindex.o -lz -lbz2 -lm gcc -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o cmetindex cmetindex-except.o cmetindex-assert.o cmetindex-mem.o cmetindex-littleendian.o cmetindex-bigendian.o cmetindex-genomicpos.o cmetindex-stopwatch.o cmetindex-semaphore.o cmetindex-access.o cmetindex-univinterval.o cmetindex-interval.o cmetindex-filestring.o cmetindex-iit-read-univ.o cmetindex-iit-read.o cmetindex-compress.o cmetindex-compress-write.o cmetindex-popcount.o cmetindex-genome128_hr.o cmetindex-genome128_consec.o cmetindex-bitpack64-read.o cmetindex-bitpack64-readtwo.o cmetindex-bitpack64-access.o cmetindex-bitpack64-incr.o cmetindex-bitpack64-write.o cmetindex-indexdb.o cmetindex-indexdb-write.o cmetindex-regiondb-write.o cmetindex-cmet.o cmetindex-md5.o cmetindex-bzip2.o cmetindex-fopen.o cmetindex-sequence.o cmetindex-genome.o cmetindex-uintlist.o cmetindex-intlist.o cmetindex-uint8list.o cmetindex-list.o cmetindex-datadir.o cmetindex-parserange.o cmetindex-getline.o cmetindex-cmetindex.o -lz -lbz2 -lm gcc -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o atoiindex atoiindex-except.o atoiindex-assert.o atoiindex-mem.o atoiindex-littleendian.o atoiindex-bigendian.o atoiindex-genomicpos.o atoiindex-stopwatch.o atoiindex-semaphore.o atoiindex-access.o atoiindex-univinterval.o atoiindex-interval.o atoiindex-filestring.o atoiindex-iit-read-univ.o atoiindex-iit-read.o atoiindex-compress.o atoiindex-compress-write.o atoiindex-popcount.o atoiindex-genome128_hr.o atoiindex-genome128_consec.o atoiindex-bitpack64-read.o atoiindex-bitpack64-readtwo.o atoiindex-bitpack64-access.o atoiindex-bitpack64-incr.o atoiindex-bitpack64-write.o atoiindex-indexdb.o atoiindex-indexdb-write.o atoiindex-regiondb-write.o atoiindex-atoi.o atoiindex-md5.o atoiindex-bzip2.o atoiindex-fopen.o atoiindex-sequence.o atoiindex-genome.o atoiindex-uintlist.o atoiindex-intlist.o atoiindex-uint8list.o atoiindex-list.o atoiindex-datadir.o atoiindex-parserange.o atoiindex-getline.o atoiindex-atoiindex.o -lz -lbz2 -lm gcc -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o trindex trindex-except.o trindex-assert.o trindex-mem.o trindex-littleendian.o trindex-bigendian.o trindex-genomicpos.o trindex-stopwatch.o trindex-semaphore.o trindex-access.o trindex-interval.o trindex-filestring.o trindex-iit-read.o trindex-parserange.o trindex-univinterval.o trindex-iit-read-univ.o trindex-bitpack64-access.o trindex-bitpack64-write.o trindex-uintlist.o trindex-intlist.o trindex-list.o trindex-datadir.o trindex-bzip2.o trindex-getline.o trindex-trindex.o -lz -lbz2 -lm gcc -DGMAPDB=\"/var/cache/gmap\" -DUTILITYP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o sam_sort sam_sort-except.o sam_sort-assert.o sam_sort-mem.o sam_sort-littleendian.o sam_sort-bigendian.o sam_sort-intlist.o sam_sort-list.o sam_sort-stopwatch.o sam_sort-semaphore.o sam_sort-access.o sam_sort-univinterval.o sam_sort-interval.o sam_sort-uintlist.o sam_sort-filestring.o sam_sort-parserange.o sam_sort-iit-read-univ.o sam_sort-iit-read.o sam_sort-samheader.o sam_sort-samread.o sam_sort-bzip2.o sam_sort-getline.o sam_sort-datadir.o sam_sort-sam_sort.o -lz -lbz2 -lm gcc -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o gmap.nosimd gmap_nosimd-except.o gmap_nosimd-assert.o gmap_nosimd-mem.o gmap_nosimd-intlist.o gmap_nosimd-uintlist.o gmap_nosimd-list.o gmap_nosimd-littleendian.o gmap_nosimd-bigendian.o gmap_nosimd-univinterval.o gmap_nosimd-interval.o gmap_nosimd-stopwatch.o gmap_nosimd-semaphore.o gmap_nosimd-access.o gmap_nosimd-filestring.o gmap_nosimd-iit-read-univ.o gmap_nosimd-iit-read.o gmap_nosimd-md5.o gmap_nosimd-bzip2.o gmap_nosimd-fopen.o gmap_nosimd-sequence.o gmap_nosimd-reader.o gmap_nosimd-genomicpos.o gmap_nosimd-compress.o gmap_nosimd-compress-write.o gmap_nosimd-gbuffer.o gmap_nosimd-genome.o gmap_nosimd-popcount.o gmap_nosimd-dinucl_bits.o gmap_nosimd-genome_canonical.o gmap_nosimd-genome-write.o gmap_nosimd-bitpack64-read.o gmap_nosimd-bitpack64-readtwo.o gmap_nosimd-indexdb.o gmap_nosimd-oligo.o gmap_nosimd-block.o gmap_nosimd-chrom.o gmap_nosimd-segmentpos.o gmap_nosimd-chrnum.o gmap_nosimd-uinttable_rh.o gmap_nosimd-gregion.o gmap_nosimd-match.o gmap_nosimd-matchpool.o gmap_nosimd-diagnostic.o gmap_nosimd-stage1.o gmap_nosimd-diag.o gmap_nosimd-diagpool.o gmap_nosimd-cmet.o gmap_nosimd-atoi.o gmap_nosimd-orderstat.o gmap_nosimd-oligoindex_hr.o gmap_nosimd-intron.o gmap_nosimd-maxent.o gmap_nosimd-maxent_hr.o gmap_nosimd-pair.o gmap_nosimd-pairpool.o gmap_nosimd-cellpool.o gmap_nosimd-stage2.o gmap_nosimd-doublelist.o gmap_nosimd-smooth.o gmap_nosimd-splicestringpool.o gmap_nosimd-splicetrie_build.o gmap_nosimd-splicetrie.o gmap_nosimd-boyer-moore.o gmap_nosimd-dynprog.o gmap_nosimd-dynprog_simd.o gmap_nosimd-dynprog_single.o gmap_nosimd-dynprog_genome.o gmap_nosimd-dynprog_cdna.o gmap_nosimd-dynprog_end.o gmap_nosimd-translation.o gmap_nosimd-pbinom.o gmap_nosimd-changepoint.o gmap_nosimd-stage3.o gmap_nosimd-request.o gmap_nosimd-result.o gmap_nosimd-output.o gmap_nosimd-inbuffer.o gmap_nosimd-samheader.o gmap_nosimd-printbuffer.o gmap_nosimd-outbuffer.o gmap_nosimd-chimera.o gmap_nosimd-datadir.o gmap_nosimd-parserange.o gmap_nosimd-getline.o gmap_nosimd-gmap.o -lz -lbz2 -lm gcc -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o gmapl.nosimd gmapl_nosimd-except.o gmapl_nosimd-assert.o gmapl_nosimd-mem.o gmapl_nosimd-intlist.o gmapl_nosimd-uintlist.o gmapl_nosimd-uint8list.o gmapl_nosimd-list.o gmapl_nosimd-littleendian.o gmapl_nosimd-bigendian.o gmapl_nosimd-univinterval.o gmapl_nosimd-interval.o gmapl_nosimd-stopwatch.o gmapl_nosimd-semaphore.o gmapl_nosimd-access.o gmapl_nosimd-filestring.o gmapl_nosimd-iit-read-univ.o gmapl_nosimd-iit-read.o gmapl_nosimd-md5.o gmapl_nosimd-bzip2.o gmapl_nosimd-fopen.o gmapl_nosimd-sequence.o gmapl_nosimd-reader.o gmapl_nosimd-genomicpos.o gmapl_nosimd-compress.o gmapl_nosimd-compress-write.o gmapl_nosimd-gbuffer.o gmapl_nosimd-genome.o gmapl_nosimd-popcount.o gmapl_nosimd-dinucl_bits.o gmapl_nosimd-genome_canonical.o gmapl_nosimd-genome-write.o gmapl_nosimd-bitpack64-read.o gmapl_nosimd-bitpack64-readtwo.o gmapl_nosimd-indexdb.o gmapl_nosimd-oligo.o gmapl_nosimd-block.o gmapl_nosimd-chrom.o gmapl_nosimd-segmentpos.o gmapl_nosimd-chrnum.o gmapl_nosimd-uinttable_rh.o gmapl_nosimd-gregion.o gmapl_nosimd-match.o gmapl_nosimd-matchpool.o gmapl_nosimd-diagnostic.o gmapl_nosimd-stage1.o gmapl_nosimd-diag.o gmapl_nosimd-diagpool.o gmapl_nosimd-cmet.o gmapl_nosimd-atoi.o gmapl_nosimd-orderstat.o gmapl_nosimd-oligoindex_hr.o gmapl_nosimd-intron.o gmapl_nosimd-maxent.o gmapl_nosimd-maxent_hr.o gmapl_nosimd-pair.o gmapl_nosimd-pairpool.o gmapl_nosimd-cellpool.o gmapl_nosimd-stage2.o gmapl_nosimd-doublelist.o gmapl_nosimd-smooth.o gmapl_nosimd-splicestringpool.o gmapl_nosimd-splicetrie_build.o gmapl_nosimd-splicetrie.o gmapl_nosimd-boyer-moore.o gmapl_nosimd-dynprog.o gmapl_nosimd-dynprog_simd.o gmapl_nosimd-dynprog_single.o gmapl_nosimd-dynprog_genome.o gmapl_nosimd-dynprog_cdna.o gmapl_nosimd-dynprog_end.o gmapl_nosimd-translation.o gmapl_nosimd-pbinom.o gmapl_nosimd-changepoint.o gmapl_nosimd-stage3.o gmapl_nosimd-request.o gmapl_nosimd-result.o gmapl_nosimd-output.o gmapl_nosimd-inbuffer.o gmapl_nosimd-samheader.o gmapl_nosimd-printbuffer.o gmapl_nosimd-outbuffer.o gmapl_nosimd-chimera.o gmapl_nosimd-datadir.o gmapl_nosimd-parserange.o gmapl_nosimd-getline.o gmapl_nosimd-gmap.o -lz -lbz2 -lm gcc -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o gsnap.nosimd gsnap_nosimd-except.o gsnap_nosimd-assert.o gsnap_nosimd-mem.o gsnap_nosimd-intlist.o gsnap_nosimd-uintlist.o gsnap_nosimd-list.o gsnap_nosimd-littleendian.o gsnap_nosimd-bigendian.o gsnap_nosimd-univinterval.o gsnap_nosimd-interval.o gsnap_nosimd-stopwatch.o gsnap_nosimd-semaphore.o gsnap_nosimd-access.o gsnap_nosimd-filestring.o gsnap_nosimd-iit-read-univ.o gsnap_nosimd-iit-read.o gsnap_nosimd-bzip2.o gsnap_nosimd-reader.o gsnap_nosimd-genomicpos.o gsnap_nosimd-compress.o gsnap_nosimd-genome.o gsnap_nosimd-transcriptome.o gsnap_nosimd-popcount.o gsnap_nosimd-genome128_hr.o gsnap_nosimd-genome128_consec.o gsnap_nosimd-dinucl_bits.o gsnap_nosimd-genome_sites.o gsnap_nosimd-bitpack64-read.o gsnap_nosimd-bitpack64-readtwo.o gsnap_nosimd-mergeinfo.o gsnap_nosimd-merge-uint4.o gsnap_nosimd-merge-diagonals-simd-uint4.o gsnap_nosimd-indexdb.o gsnap_nosimd-regiondb.o gsnap_nosimd-oligo.o gsnap_nosimd-chrnum.o gsnap_nosimd-maxent_hr.o gsnap_nosimd-mdprint.o gsnap_nosimd-cigar.o gsnap_nosimd-samprint.o gsnap_nosimd-mapq.o gsnap_nosimd-fopen.o gsnap_nosimd-shortread.o gsnap_nosimd-substring.o gsnap_nosimd-junction.o gsnap_nosimd-exon.o gsnap_nosimd-doublelist.o gsnap_nosimd-bitvector.o gsnap_nosimd-transcript.o gsnap_nosimd-method.o gsnap_nosimd-stage3hr.o gsnap_nosimd-ladder.o gsnap_nosimd-concordance.o gsnap_nosimd-simplepair.o gsnap_nosimd-maxent.o gsnap_nosimd-orderstat.o gsnap_nosimd-intlistpool.o gsnap_nosimd-uintlistpool.o gsnap_nosimd-listpool.o gsnap_nosimd-hitlistpool.o gsnap_nosimd-intron.o gsnap_nosimd-gbuffer.o gsnap_nosimd-knownsplicing.o gsnap_nosimd-splice.o gsnap_nosimd-indel.o gsnap_nosimd-bitpack64-access.o gsnap_nosimd-univdiag.o gsnap_nosimd-univdiagpool.o gsnap_nosimd-sedgesort.o gsnap_nosimd-intersect.o gsnap_nosimd-kmer-search.o gsnap_nosimd-path-solve.o gsnap_nosimd-extension-search.o gsnap_nosimd-segment-search.o gsnap_nosimd-terminal.o gsnap_nosimd-distant-rna.o gsnap_nosimd-distant-dna.o gsnap_nosimd-uint8table_rh.o gsnap_nosimd-uinttable_rh.o gsnap_nosimd-stage1hr.o gsnap_nosimd-tableuint.o gsnap_nosimd-single-cell.o gsnap_nosimd-request.o gsnap_nosimd-resulthr.o gsnap_nosimd-output.o gsnap_nosimd-inbuffer.o gsnap_nosimd-samheader.o gsnap_nosimd-printbuffer.o gsnap_nosimd-outbuffer.o gsnap_nosimd-datadir.o gsnap_nosimd-parserange.o gsnap_nosimd-getline.o gsnap_nosimd-gsnap.o -lz -lbz2 -lm gcc -DTARGET=\"arm-unknown-linux-gnueabihf\" -DGMAPDB=\"/var/cache/gmap\" -DMAX_STACK_READLENGTH=300 -DGSNAP=1 -DLARGE_GENOMES=1 -g -O2 -ffile-prefix-map=/build/gmap-2021-12-17+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o gsnapl.nosimd gsnapl_nosimd-except.o gsnapl_nosimd-assert.o gsnapl_nosimd-mem.o gsnapl_nosimd-intlist.o gsnapl_nosimd-uintlist.o gsnapl_nosimd-uint8list.o gsnapl_nosimd-list.o gsnapl_nosimd-littleendian.o gsnapl_nosimd-bigendian.o gsnapl_nosimd-univinterval.o gsnapl_nosimd-interval.o gsnapl_nosimd-stopwatch.o gsnapl_nosimd-semaphore.o gsnapl_nosimd-access.o gsnapl_nosimd-filestring.o gsnapl_nosimd-iit-read-univ.o gsnapl_nosimd-iit-read.o gsnapl_nosimd-bzip2.o gsnapl_nosimd-reader.o gsnapl_nosimd-genomicpos.o gsnapl_nosimd-compress.o gsnapl_nosimd-genome.o gsnapl_nosimd-transcriptome.o gsnapl_nosimd-popcount.o gsnapl_nosimd-genome128_hr.o gsnapl_nosimd-genome128_consec.o gsnapl_nosimd-dinucl_bits.o gsnapl_nosimd-genome_sites.o gsnapl_nosimd-bitpack64-read.o gsnapl_nosimd-bitpack64-readtwo.o gsnapl_nosimd-mergeinfo.o gsnapl_nosimd-merge-diagonals-heap.o gsnapl_nosimd-merge-uint8.o gsnapl_nosimd-merge-diagonals-simd-uint8.o gsnapl_nosimd-merge-uint4.o gsnapl_nosimd-merge-diagonals-simd-uint4.o gsnapl_nosimd-indexdb.o gsnapl_nosimd-regiondb.o gsnapl_nosimd-oligo.o gsnapl_nosimd-chrnum.o gsnapl_nosimd-maxent_hr.o gsnapl_nosimd-mdprint.o gsnapl_nosimd-cigar.o gsnapl_nosimd-samprint.o gsnapl_nosimd-mapq.o gsnapl_nosimd-fopen.o gsnapl_nosimd-shortread.o gsnapl_nosimd-substring.o gsnapl_nosimd-junction.o gsnapl_nosimd-exon.o gsnapl_nosimd-doublelist.o gsnapl_nosimd-bitvector.o gsnapl_nosimd-transcript.o gsnapl_nosimd-method.o gsnapl_nosimd-stage3hr.o gsnapl_nosimd-ladder.o gsnapl_nosimd-concordance.o gsnapl_nosimd-simplepair.o gsnapl_nosimd-maxent.o gsnapl_nosimd-orderstat.o gsnapl_nosimd-intlistpool.o gsnapl_nosimd-uint8listpool.o gsnapl_nosimd-listpool.o gsnapl_nosimd-hitlistpool.o gsnapl_nosimd-intron.o gsnapl_nosimd-gbuffer.o gsnapl_nosimd-knownsplicing.o gsnapl_nosimd-splice.o gsnapl_nosimd-indel.o gsnapl_nosimd-bitpack64-access.o gsnapl_nosimd-univdiag.o gsnapl_nosimd-univdiagpool.o gsnapl_nosimd-sedgesort.o gsnapl_nosimd-intersect.o gsnapl_nosimd-intersect-large.o gsnapl_nosimd-kmer-search.o gsnapl_nosimd-path-solve.o gsnapl_nosimd-extension-search.o gsnapl_nosimd-segment-search.o gsnapl_nosimd-terminal.o gsnapl_nosimd-distant-rna.o gsnapl_nosimd-distant-dna.o gsnapl_nosimd-uint8table_rh.o gsnapl_nosimd-stage1hr.o gsnapl_nosimd-tableuint.o gsnapl_nosimd-single-cell.o gsnapl_nosimd-request.o gsnapl_nosimd-resulthr.o gsnapl_nosimd-output.o gsnapl_nosimd-inbuffer.o gsnapl_nosimd-samheader.o gsnapl_nosimd-printbuffer.o gsnapl_nosimd-outbuffer.o gsnapl_nosimd-datadir.o gsnapl_nosimd-parserange.o gsnapl_nosimd-getline.o gsnapl_nosimd-gsnap.o -lz -lbz2 -lm make[3]: Leaving directory '/build/gmap-2021-12-17+ds/src' make[2]: Leaving directory '/build/gmap-2021-12-17+ds/src' Making all in util make[2]: Entering directory '/build/gmap-2021-12-17+ds/util' cp gmap_process.pl gmap_process cp gmap_build.pl gmap_build cp gmap_cat.pl gmap_cat chmod +x gmap_process chmod +x gmap_build chmod +x gmap_cat cp md_coords.pl md_coords cp fa_coords.pl fa_coords cp psl_splicesites.pl psl_splicesites chmod +x md_coords chmod +x fa_coords chmod +x psl_splicesites cp psl_introns.pl psl_introns cp psl_genes.pl psl_genes cp ensembl_genes.pl ensembl_genes chmod +x psl_introns chmod +x psl_genes chmod +x ensembl_genes cp gtf_splicesites.pl gtf_splicesites cp gtf_introns.pl gtf_introns cp gtf_genes.pl gtf_genes chmod +x gtf_splicesites chmod +x gtf_introns chmod +x gtf_genes cp gtf_transcript_splicesites.pl gtf_transcript_splicesites cp gff3_splicesites.pl gff3_splicesites cp gff3_introns.pl gff3_introns chmod +x gtf_transcript_splicesites chmod +x gff3_splicesites chmod +x gff3_introns cp gff3_genes.pl gff3_genes cp dbsnp_iit.pl dbsnp_iit cp gvf_iit.pl gvf_iit chmod +x gff3_genes chmod +x dbsnp_iit chmod +x gvf_iit cp vcf_iit.pl vcf_iit chmod +x vcf_iit make[2]: Leaving directory '/build/gmap-2021-12-17+ds/util' Making all in tests make[2]: Entering directory '/build/gmap-2021-12-17+ds/tests' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/gmap-2021-12-17+ds/tests' make[2]: Entering directory '/build/gmap-2021-12-17+ds' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/build/gmap-2021-12-17+ds' make[1]: Leaving directory '/build/gmap-2021-12-17+ds' debian/rules override_dh_auto_test make[1]: Entering directory '/build/gmap-2021-12-17+ds' dh_auto_test --no-parallel make -j1 check "TESTSUITEFLAGS=-j1 --verbose" VERBOSE=1 make[2]: Entering directory '/build/gmap-2021-12-17+ds' Making check in src make[3]: Entering directory '/build/gmap-2021-12-17+ds/src' make[3]: Leaving directory '/build/gmap-2021-12-17+ds/src' Making check in util make[3]: Entering directory '/build/gmap-2021-12-17+ds/util' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/gmap-2021-12-17+ds/util' Making check in tests make[3]: Entering directory '/build/gmap-2021-12-17+ds/tests' make check-TESTS make[4]: Entering directory '/build/gmap-2021-12-17+ds/tests' make[5]: Entering directory '/build/gmap-2021-12-17+ds/tests' PASS: align.test PASS: coords1.test PASS: setup1.test PASS: iit.test ============================================================================ Testsuite summary for gmap 2021-12-17 ============================================================================ # TOTAL: 4 # PASS: 4 # SKIP: 0 # XFAIL: 0 # FAIL: 0 # XPASS: 0 # ERROR: 0 ============================================================================ make[5]: Leaving directory '/build/gmap-2021-12-17+ds/tests' make[4]: Leaving directory '/build/gmap-2021-12-17+ds/tests' make[3]: Leaving directory '/build/gmap-2021-12-17+ds/tests' make[3]: Entering directory '/build/gmap-2021-12-17+ds' make[3]: Nothing to be done for 'check-am'. make[3]: Leaving directory '/build/gmap-2021-12-17+ds' make[2]: Leaving directory '/build/gmap-2021-12-17+ds' make[1]: Leaving directory '/build/gmap-2021-12-17+ds' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/gmap-2021-12-17+ds' mkdir -p /build/gmap-2021-12-17+ds/debian/gmap/usr/share/man/man1 /usr/bin/help2man --no-info --version-string=2021-12-17+ds-3 --name='Genomic Mapping and Alignment Program' \ /build/gmap-2021-12-17+ds/src/gmap |debian/filter.pl >/build/gmap-2021-12-17+ds/debian/gmap/usr/share/man/man1/gmap.1 /usr/bin/help2man --no-info --version-string=2021-12-17+ds-3 --name='Genomic Short-read Nucleotide Alignment Program' \ /build/gmap-2021-12-17+ds/src/gsnap |debian/filter.pl >/build/gmap-2021-12-17+ds/debian/gmap/usr/share/man/man1/gsnap.1 /usr/bin/help2man --no-info --version-string=2021-12-17+ds-3 --name='Tool for genome database creation for GMAP or GSNAP' \ /build/gmap-2021-12-17+ds/util/gmap_build |debian/filter.pl >/build/gmap-2021-12-17+ds/debian/gmap/usr/share/man/man1/gmap_build.1 dh_auto_install make -j3 install DESTDIR=/build/gmap-2021-12-17\+ds/debian/gmap AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/build/gmap-2021-12-17+ds' Making install in src make[3]: Entering directory '/build/gmap-2021-12-17+ds/src' make[4]: Entering directory '/build/gmap-2021-12-17+ds/src' make[4]: Nothing to be done for 'install-data-am'. /bin/mkdir -p '/build/gmap-2021-12-17+ds/debian/gmap/usr/lib/gmap' /usr/bin/install -c cpuid gmap gmapl get-genome gmapindex indexdb_cat iit_store iit_get iit_dump gsnap gsnapl snpindex cmetindex atoiindex trindex sam_sort gmap.nosimd gmapl.nosimd gsnap.nosimd gsnapl.nosimd '/build/gmap-2021-12-17+ds/debian/gmap/usr/lib/gmap' make[4]: Leaving directory '/build/gmap-2021-12-17+ds/src' make[3]: Leaving directory '/build/gmap-2021-12-17+ds/src' Making install in util make[3]: Entering directory '/build/gmap-2021-12-17+ds/util' make[4]: Entering directory '/build/gmap-2021-12-17+ds/util' make[4]: Nothing to be done for 'install-data-am'. /bin/mkdir -p '/build/gmap-2021-12-17+ds/debian/gmap/usr/lib/gmap' /usr/bin/install -c gmap_process gmap_build gmap_cat md_coords fa_coords psl_splicesites psl_introns psl_genes ensembl_genes gtf_splicesites gtf_introns gtf_genes gtf_transcript_splicesites gff3_splicesites gff3_introns gff3_genes dbsnp_iit gvf_iit vcf_iit '/build/gmap-2021-12-17+ds/debian/gmap/usr/lib/gmap' make[4]: Leaving directory '/build/gmap-2021-12-17+ds/util' make[3]: Leaving directory '/build/gmap-2021-12-17+ds/util' Making install in tests make[3]: Entering directory '/build/gmap-2021-12-17+ds/tests' make[4]: Entering directory '/build/gmap-2021-12-17+ds/tests' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/build/gmap-2021-12-17+ds/tests' make[3]: Leaving directory '/build/gmap-2021-12-17+ds/tests' make[3]: Entering directory '/build/gmap-2021-12-17+ds' make[4]: Entering directory '/build/gmap-2021-12-17+ds' make[4]: Nothing to be done for 'install-exec-am'. /bin/bash /build/gmap-2021-12-17+ds/config/install-sh -d /build/gmap-2021-12-17+ds/debian/gmap/var/cache/gmap make[4]: Leaving directory '/build/gmap-2021-12-17+ds' make[3]: Leaving directory '/build/gmap-2021-12-17+ds' make[2]: Leaving directory '/build/gmap-2021-12-17+ds' make[1]: Leaving directory '/build/gmap-2021-12-17+ds' debian/rules override_dh_install make[1]: Entering directory '/build/gmap-2021-12-17+ds' mkdir -p debian/gmap/usr/bin dh_install for bin in `echo gmap gsnap gmap_build gmapl gsnapl; \ cd /build/gmap-2021-12-17+ds/debian/gmap/usr/lib/gmap/; \ ls -1 gmap*.* gsnap*.* `; do \ ln -s /usr/lib/gmap/$bin debian/gmap/usr/bin/$bin; \ done make[1]: Leaving directory '/build/gmap-2021-12-17+ds' dh_installdocs dh_installchangelogs debian/rules override_dh_installexamples make[1]: Entering directory '/build/gmap-2021-12-17+ds' mkdir /build/gmap-2021-12-17+ds/debian/gmap/usr/share/doc/gmap/examples find tests/ -type f -print0 | xargs -0r sed -i \ -e 's@/build/gmap-2021-12-17+ds@«buildpath»@g' \ -e 's@\#! /bin/bash@\#! /bin/sh@g' tar --sort=name \ --mtime="@1664818591" \ --owner=root --group=root --numeric-owner \ --mode=go=rX,u+rw,a-s \ --exclude='*/align.log' \ --exclude='*/Makefile' \ --exclude='*/Makefile.in' \ -cJf /build/gmap-2021-12-17+ds/debian/gmap/usr/share/doc/gmap/examples/tests.tar.xz tests make[1]: Leaving directory '/build/gmap-2021-12-17+ds' dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'gmap' in '../gmap_2021-12-17+ds-3_armhf.deb'. dpkg-deb: building package 'gmap-dbgsym' in '../gmap-dbgsym_2021-12-17+ds-3_armhf.deb'. dpkg-genbuildinfo --build=binary -O../gmap_2021-12-17+ds-3_armhf.buildinfo dpkg-genchanges --build=binary -O../gmap_2021-12-17+ds-3_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: 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/31763 and its subdirectories I: Current time: Thu May 25 18:28:13 -12 2023 I: pbuilder-time-stamp: 1685082493