Sat May 23 13:07:34 UTC 2020 I: starting to build examl/buster/i386 on jenkins on '2020-05-23 13:07' Sat May 23 13:07:34 UTC 2020 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_10/6062/console.log Sat May 23 13:07:34 UTC 2020 I: Downloading source for buster/examl=3.0.21-2 --2020-05-23 13:07:34-- http://deb.debian.org/debian/pool/main/e/examl/examl_3.0.21-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2071 (2.0K) Saving to: ‘examl_3.0.21-2.dsc’ 0K .. 100% 23.2M=0s 2020-05-23 13:07:34 (23.2 MB/s) - ‘examl_3.0.21-2.dsc’ saved [2071/2071] Sat May 23 13:07:34 UTC 2020 I: examl_3.0.21-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: examl Binary: examl Architecture: amd64 i386 kfreebsd-i386 kfreebsd-amd64 hurd-i386 Version: 3.0.21-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/stamatak/ExaML Standards-Version: 4.1.4 Vcs-Browser: https://salsa.debian.org/med-team/examl Vcs-Git: https://salsa.debian.org/med-team/examl.git Testsuite: autopkgtest Testsuite-Triggers: pocl-opencl-icd Build-Depends: debhelper (>= 11~), libopenmpi-dev Package-List: examl deb science optional arch=amd64,i386,kfreebsd-i386,kfreebsd-amd64,hurd-i386 Checksums-Sha1: d5841dee92ff6bd5f252b5c15be2dd3ef70cfcf9 941361 examl_3.0.21.orig.tar.gz d1280593c590d734d5cf281a08dd1f5a60f43d26 7680 examl_3.0.21-2.debian.tar.xz Checksums-Sha256: 6c7e6c5d7bf4ab5cfbac5cc0d577885272a803c142e06b531693a6a589102e2e 941361 examl_3.0.21.orig.tar.gz 2098533b894f4b7c236d00b4bcd42310dae137a7a964892be95325d11be9ad02 7680 examl_3.0.21-2.debian.tar.xz Files: 988aa06b2e9ac924d07963d283afd74b 941361 examl_3.0.21.orig.tar.gz 8a7368688d5d0ecf223de5e99519ee43 7680 examl_3.0.21-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAls58gMRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHOdg/+LtKLbiUzOrUNbK9Dv6HrJccvpKtdmMcQ h6UDZkq8hddLkJRigqWXmu6ybTEVjx5oRGQfMXaG1BbfYHez02VnWMtlXTUoN8g+ 7fX3RZh9Z8fG56qecKpJvqupAusXwypOPrpNveZUDHWPjWjjcEdtovAZxT6dIYLk sZ+SbaIt5g6HMoGaWncxjjCM/M8I0SVW4qB/xyWV/nNLb3Tjf2IcGSo/RUIjK4Y8 x72Dro8tHBYjVKbljVPuh/21xeNtuEitsP17FJZv35tl+75Yv/seZno4I7Zpda3P LEPFSsvP1CrFo4FuVjy5X7PzkQ9e1RKU0Q/BoLbj95xqboGnNv/+6tYXWXzuCPbz ZrxrBBPK7nGGOjJynV80ldgxFnTcueZYYSJzY+v9mMS2GPruePhxKQB6HDkAzkJo rXBUBM8M7PmHBo/3DLG+bXaRtXoqKx5VD+wN4FWy1LvUzyyViPUmcCHE6C10Bxwo 8y/V5fNL3RW1eE3XfccRh2SnYCroPtWTa3VqAgQcA0pzxlNAeUdsYouXXb6nD1aH OxtOp3BXRzikIiKjNqM7U8rHxWNU8NxeWv6bhswIz+yL7rq6Rcpj2H7FaLdd79ua YpQKxfgPHPxsnXiB6yr3Zz20iwNan/W1IzuIxsQyYI9pT9qQBglxwy/rsKnWwdEj 21LIBEZedQk= =iRGD -----END PGP SIGNATURE----- Sat May 23 13:07:34 UTC 2020 I: Checking whether the package is not for us Sat May 23 13:07:34 UTC 2020 I: Starting 1st build on remote node profitbricks-build6-i386.debian.net. Sat May 23 13:07:34 UTC 2020 I: Preparing to do remote build '1' on profitbricks-build6-i386.debian.net. Sat May 23 13:08:54 UTC 2020 I: Deleting $TMPDIR on profitbricks-build6-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Jun 25 07:30:35 -12 2021 I: pbuilder-time-stamp: 1624649435 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [examl_3.0.21-2.dsc] I: copying [./examl_3.0.21.orig.tar.gz] I: copying [./examl_3.0.21-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sun Jul 1 21:36:03 2018 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./examl_3.0.21-2.dsc dpkg-source: info: extracting examl in examl-3.0.21 dpkg-source: info: unpacking examl_3.0.21.orig.tar.gz dpkg-source: info: unpacking examl_3.0.21-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch I: using fakeroot in build. I: Installing the build-deps -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 11~), libopenmpi-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19234 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on libopenmpi-dev; however: Package libopenmpi-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} ibverbs-providers{a} intltool-debian{a} libarchive-zip-perl{a} libbsd0{a} libcroco3{a} libedit2{a} libelf1{a} libevent-2.1-6{a} libevent-core-2.1-6{a} libevent-pthreads-2.1-6{a} libfabric1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libglib2.0-0{a} libgssapi-krb5-2{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc5{a} libibverbs-dev{a} libibverbs1{a} libicu63{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi3{a} libpciaccess0{a} libpipeline1{a} libpmix2{a} libpsm-infinipath1{a} librdmacm1{a} libsigsegv2{a} libssl1.1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl krb5-locales libarchive-cpio-perl libcoarrays-openmpi-dev libglib2.0-data libgpm2 libmail-sendmail-perl lynx shared-mime-info wget xauth xdg-user-dirs 0 packages upgraded, 69 newly installed, 0 to remove and 0 not upgraded. Need to get 30.5 MB of archives. After unpacking 110 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 8 http://deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4+deb10u1 [242 kB] Get: 9 http://deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4+deb10u1 [124 kB] Get: 10 http://deb.debian.org/debian buster/main i386 file i386 1:5.35-4+deb10u1 [66.3 kB] Get: 11 http://deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 12 http://deb.debian.org/debian buster/main i386 libedit2 i386 3.1-20181209-1 [98.2 kB] Get: 13 http://deb.debian.org/debian buster/main i386 libkeyutils1 i386 1.6-6 [15.4 kB] Get: 14 http://deb.debian.org/debian buster/main i386 libkrb5support0 i386 1.17-3 [68.6 kB] Get: 15 http://deb.debian.org/debian buster/main i386 libk5crypto3 i386 1.17-3 [126 kB] Get: 16 http://deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1d-0+deb10u3 [1537 kB] Get: 17 http://deb.debian.org/debian buster/main i386 libkrb5-3 i386 1.17-3 [396 kB] Get: 18 http://deb.debian.org/debian buster/main i386 libgssapi-krb5-2 i386 1.17-3 [168 kB] Get: 19 http://deb.debian.org/debian buster/main i386 openssh-client i386 1:7.9p1-10+deb10u2 [834 kB] Get: 20 http://deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 21 http://deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 22 http://deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 23 http://deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 24 http://deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 25 http://deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 26 http://deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 27 http://deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 28 http://deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 29 http://deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 30 http://deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 31 http://deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 32 http://deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 33 http://deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2+deb10u2 [1334 kB] Get: 34 http://deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6+deb10u1 [8451 kB] Get: 35 http://deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 36 http://deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 37 http://deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2+deb10u2 [109 kB] Get: 38 http://deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 39 http://deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 40 http://deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 41 http://deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 42 http://deb.debian.org/debian buster/main i386 libnl-3-200 i386 3.4.0-1 [65.8 kB] Get: 43 http://deb.debian.org/debian buster/main i386 libnl-route-3-200 i386 3.4.0-1 [170 kB] Get: 44 http://deb.debian.org/debian buster/main i386 libibverbs1 i386 22.1-1 [53.9 kB] Get: 45 http://deb.debian.org/debian buster/main i386 ibverbs-providers i386 22.1-1 [201 kB] Get: 46 http://deb.debian.org/debian buster/main i386 libevent-2.1-6 i386 2.1.8-stable-4 [191 kB] Get: 47 http://deb.debian.org/debian buster/main i386 libevent-core-2.1-6 i386 2.1.8-stable-4 [137 kB] Get: 48 http://deb.debian.org/debian buster/main i386 libevent-pthreads-2.1-6 i386 2.1.8-stable-4 [48.1 kB] Get: 49 http://deb.debian.org/debian buster/main i386 libpsm-infinipath1 i386 3.3+20.604758e7-6 [178 kB] Get: 50 http://deb.debian.org/debian buster/main i386 librdmacm1 i386 22.1-1 [68.8 kB] Get: 51 http://deb.debian.org/debian buster/main i386 libfabric1 i386 1.6.2-3 [364 kB] Get: 52 http://deb.debian.org/debian buster/main i386 libgfortran5 i386 8.3.0-6 [549 kB] Get: 53 http://deb.debian.org/debian buster/main i386 libltdl7 i386 2.4.6-9 [392 kB] Get: 54 http://deb.debian.org/debian buster/main i386 libnuma1 i386 2.0.12-1 [27.7 kB] Get: 55 http://deb.debian.org/debian buster/main i386 libhwloc5 i386 1.11.12-3 [119 kB] Get: 56 http://deb.debian.org/debian buster/main i386 libnuma-dev i386 2.0.12-1 [40.9 kB] Get: 57 http://deb.debian.org/debian buster/main i386 libltdl-dev i386 2.4.6-9 [164 kB] Get: 58 http://deb.debian.org/debian buster/main i386 libhwloc-dev i386 1.11.12-3 [185 kB] Get: 59 http://deb.debian.org/debian buster/main i386 libpciaccess0 i386 0.14-1 [55.7 kB] Get: 60 http://deb.debian.org/debian buster/main i386 ocl-icd-libopencl1 i386 2.2.12-2 [37.2 kB] Get: 61 http://deb.debian.org/debian buster/main i386 libhwloc-plugins i386 1.11.12-3 [17.8 kB] Get: 62 http://deb.debian.org/debian buster/main i386 libnl-3-dev i386 3.4.0-1 [107 kB] Get: 63 http://deb.debian.org/debian buster/main i386 libnl-route-3-dev i386 3.4.0-1 [193 kB] Get: 64 http://deb.debian.org/debian buster/main i386 libibverbs-dev i386 22.1-1 [385 kB] Get: 65 http://deb.debian.org/debian buster/main i386 libpmix2 i386 3.1.2-3 [541 kB] Get: 66 http://deb.debian.org/debian buster/main i386 libopenmpi3 i386 3.1.3-11 [2236 kB] Get: 67 http://deb.debian.org/debian buster/main i386 openmpi-common all 3.1.3-11 [165 kB] Get: 68 http://deb.debian.org/debian buster/main i386 openmpi-bin i386 3.1.3-11 [200 kB] Get: 69 http://deb.debian.org/debian buster/main i386 libopenmpi-dev i386 3.1.3-11 [963 kB] Fetched 30.5 MB in 0s (70.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (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 ... 19234 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../02-libuchardet0_0.0.6-3_i386.deb ... Unpacking libuchardet0:i386 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_i386.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../04-libpipeline1_1.5.1-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_i386.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../06-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../07-libmagic-mgc_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../08-libmagic1_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic1:i386 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../09-file_1%3a5.35-4+deb10u1_i386.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../10-gettext-base_0.19.8.1-9_i386.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libedit2:i386. Preparing to unpack .../11-libedit2_3.1-20181209-1_i386.deb ... Unpacking libedit2:i386 (3.1-20181209-1) ... Selecting previously unselected package libkeyutils1:i386. Preparing to unpack .../12-libkeyutils1_1.6-6_i386.deb ... Unpacking libkeyutils1:i386 (1.6-6) ... Selecting previously unselected package libkrb5support0:i386. Preparing to unpack .../13-libkrb5support0_1.17-3_i386.deb ... Unpacking libkrb5support0:i386 (1.17-3) ... Selecting previously unselected package libk5crypto3:i386. Preparing to unpack .../14-libk5crypto3_1.17-3_i386.deb ... Unpacking libk5crypto3:i386 (1.17-3) ... Selecting previously unselected package libssl1.1:i386. Preparing to unpack .../15-libssl1.1_1.1.1d-0+deb10u3_i386.deb ... Unpacking libssl1.1:i386 (1.1.1d-0+deb10u3) ... Selecting previously unselected package libkrb5-3:i386. Preparing to unpack .../16-libkrb5-3_1.17-3_i386.deb ... Unpacking libkrb5-3:i386 (1.17-3) ... Selecting previously unselected package libgssapi-krb5-2:i386. Preparing to unpack .../17-libgssapi-krb5-2_1.17-3_i386.deb ... Unpacking libgssapi-krb5-2:i386 (1.17-3) ... Selecting previously unselected package openssh-client. Preparing to unpack .../18-openssh-client_1%3a7.9p1-10+deb10u2_i386.deb ... Unpacking openssh-client (1:7.9p1-10+deb10u2) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../19-libsigsegv2_2.12-2_i386.deb ... Unpacking libsigsegv2:i386 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../20-m4_1.4.18-2_i386.deb ... Unpacking m4 (1.4.18-2) ... 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I: Building the package I: Running cd /build/examl-3.0.21/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package examl dpkg-buildpackage: info: source version 3.0.21-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean --sourcedirectory=examl debian/rules override_dh_auto_clean make[1]: Entering directory '/build/examl-3.0.21' dh_auto_clean for mfile in Makefile.AVX.gcc Makefile.OMP.AVX.gcc Makefile.OMP.SSE3.gcc Makefile.SSE3.gcc; do /usr/bin/make --directory=examl -f ${mfile} clean ; done make[2]: Entering directory '/build/examl-3.0.21/examl' rm -f *.o examl-AVX make[2]: Leaving directory '/build/examl-3.0.21/examl' make[2]: Entering directory '/build/examl-3.0.21/examl' rm -f *.o examl-OMP-AVX make[2]: Leaving directory '/build/examl-3.0.21/examl' make[2]: Entering directory '/build/examl-3.0.21/examl' rm -f *.o examl-OMP make[2]: Leaving directory '/build/examl-3.0.21/examl' make[2]: Entering directory '/build/examl-3.0.21/examl' rm -f *.o examl make[2]: Leaving directory '/build/examl-3.0.21/examl' /usr/bin/make --directory=parser -f Makefile.SSE3.gcc clean make[2]: Entering directory '/build/examl-3.0.21/parser' rm -f *.o parse-examl make[2]: Leaving directory '/build/examl-3.0.21/parser' make[1]: Leaving directory '/build/examl-3.0.21' dh_autoreconf_clean -O--sourcedirectory=examl dh_clean -O--sourcedirectory=examl debian/rules build dh build --sourcedirectory=examl dh_update_autotools_config -O--sourcedirectory=examl dh_autoreconf -O--sourcedirectory=examl dh_auto_configure -O--sourcedirectory=examl debian/rules override_dh_auto_build make[1]: Entering directory '/build/examl-3.0.21' dh_auto_build for mfile in Makefile.AVX.gcc Makefile.OMP.AVX.gcc Makefile.OMP.SSE3.gcc Makefile.SSE3.gcc; do /usr/bin/make --directory=examl -f ${mfile} ; done make[2]: Entering directory '/build/examl-3.0.21/examl' rm -f *.o examl-AVX mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o axml.o axml.c In function ‘initializePartitions’, inlined from ‘initializeTree.isra.6’ at axml.c:2216:3, inlined from ‘main’ at axml.c:2629:5: axml.c:2120:40: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] *modelWeights = (unsigned long*) calloc(tr->NumberOfModels, sizeof(unsigned long)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from axml.c:44: axml.c: In function ‘main’: /usr/include/stdlib.h:541:14: note: in a call to allocation function ‘calloc’ declared here extern void *calloc (size_t __nmemb, size_t __size) ^~~~~~ mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o optimizeModel.o optimizeModel.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o trash.o trash.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o searchAlgo.o searchAlgo.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o topologies.o topologies.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o treeIO.o treeIO.c mpicc -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O1 -c -o models.o models.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluatePartialGenericSpecial.o evaluatePartialGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluateGenericSpecial.o evaluateGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o newviewGenericSpecial.o newviewGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o makenewzGenericSpecial.o makenewzGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o bipartitionList.o bipartitionList.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o restartHashTable.o restartHashTable.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -mavx -c -o avxLikelihood.o avxLikelihood.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o byteFile.o byteFile.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o partitionAssignment.o partitionAssignment.c partitionAssignment.c: In function ‘printAssignment’: partitionAssignment.c:457:21: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid); ~~^ ~~~~~~~~ %u partitionAssignment.c:457:25: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid); ~~^ ~~~~~~~ %u partitionAssignment.c: In function ‘printAssignments’: partitionAssignment.c:470:18: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId); ~~^ ~~~~~~~~ %u partitionAssignment.c:470:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId); ~~^ ~~~~~~~ %u partitionAssignment.c: In function ‘printLoad’: partitionAssignment.c:498:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%d\t%lu\n", i, numsPerProc[i], sitesPerProc[i]); ~~^ ~~~~~~~~~~~~~~~ %u mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o communication.o communication.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o quartets.o quartets.c mpicc -o examl-AVX axml.o optimizeModel.o trash.o searchAlgo.o topologies.o treeIO.o models.o evaluatePartialGenericSpecial.o evaluateGenericSpecial.o newviewGenericSpecial.o makenewzGenericSpecial.o bipartitionList.o restartHashTable.o avxLikelihood.o byteFile.o partitionAssignment.o communication.o quartets.o -lm -mavx -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/examl-3.0.21/examl' make[2]: Entering directory '/build/examl-3.0.21/examl' rm -f *.o examl-OMP-AVX mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o axml.o axml.c In function ‘initializePartitions’, inlined from ‘initializeTree.isra.6’ at axml.c:2216:3, inlined from ‘main’ at axml.c:2629:5: axml.c:2120:40: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] *modelWeights = (unsigned long*) calloc(tr->NumberOfModels, sizeof(unsigned long)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from axml.c:44: axml.c: In function ‘main’: /usr/include/stdlib.h:541:14: note: in a call to allocation function ‘calloc’ declared here extern void *calloc (size_t __nmemb, size_t __size) ^~~~~~ mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o optimizeModel.o optimizeModel.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o trash.o trash.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o searchAlgo.o searchAlgo.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o topologies.o topologies.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o treeIO.o treeIO.c mpicc -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O1 -c -o models.o models.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluatePartialGenericSpecial.o evaluatePartialGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluateGenericSpecial.o evaluateGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o newviewGenericSpecial.o newviewGenericSpecial.c newviewGenericSpecial.c: In function ‘newviewIterative’: newviewGenericSpecial.c:1165:5: warning: variable ‘requiredLength’ set but not used [-Wunused-but-set-variable] requiredLength = 0; ^~~~~~~~~~~~~~ newviewGenericSpecial.c:1164:5: warning: unused variable ‘availableLength’ [-Wunused-variable] availableLength = tr->partitionData[model].xSpaceVector[(tInfo->pNumber - tr->mxtips - 1)], ^~~~~~~~~~~~~~~ mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o makenewzGenericSpecial.o makenewzGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o bipartitionList.o bipartitionList.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o restartHashTable.o restartHashTable.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -mavx -c -o avxLikelihood.o avxLikelihood.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o byteFile.o byteFile.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o partitionAssignment.o partitionAssignment.c partitionAssignment.c: In function ‘printAssignment’: partitionAssignment.c:457:21: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid); ~~^ ~~~~~~~~ %u partitionAssignment.c:457:25: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid); ~~^ ~~~~~~~ %u partitionAssignment.c: In function ‘printAssignments’: partitionAssignment.c:470:18: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId); ~~^ ~~~~~~~~ %u partitionAssignment.c:470:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId); ~~^ ~~~~~~~ %u partitionAssignment.c: In function ‘printLoad’: partitionAssignment.c:498:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%d\t%lu\n", i, numsPerProc[i], sitesPerProc[i]); ~~^ ~~~~~~~~~~~~~~~ %u mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o communication.o communication.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D__SIM_SSE3 -D__AVX -D_USE_OMP -fopenmp -D_OPTIMIZED_FUNCTIONS -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o quartets.o quartets.c quartets.c: In function ‘computeQuartets’: quartets.c:494:11: warning: ‘f’ may be used uninitialized in this function [-Wmaybe-uninitialized] fflush(f); ^~~~~~~~~ mpicc -o examl-OMP-AVX axml.o optimizeModel.o trash.o searchAlgo.o topologies.o treeIO.o models.o evaluatePartialGenericSpecial.o evaluateGenericSpecial.o newviewGenericSpecial.o makenewzGenericSpecial.o bipartitionList.o restartHashTable.o avxLikelihood.o byteFile.o partitionAssignment.o communication.o quartets.o -lm -mavx -fopenmp -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/examl-3.0.21/examl' make[2]: Entering directory '/build/examl-3.0.21/examl' rm -f *.o examl-OMP mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o axml.o axml.c In function ‘initializePartitions’, inlined from ‘initializeTree.isra.6’ at axml.c:2216:3, inlined from ‘main’ at axml.c:2629:5: axml.c:2120:40: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] *modelWeights = (unsigned long*) calloc(tr->NumberOfModels, sizeof(unsigned long)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from axml.c:44: axml.c: In function ‘main’: /usr/include/stdlib.h:541:14: note: in a call to allocation function ‘calloc’ declared here extern void *calloc (size_t __nmemb, size_t __size) ^~~~~~ mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o optimizeModel.o optimizeModel.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o trash.o trash.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o searchAlgo.o searchAlgo.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o topologies.o topologies.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o treeIO.o treeIO.c mpicc -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O1 -c -o models.o models.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluatePartialGenericSpecial.o evaluatePartialGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluateGenericSpecial.o evaluateGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o newviewGenericSpecial.o newviewGenericSpecial.c newviewGenericSpecial.c: In function ‘newviewIterative’: newviewGenericSpecial.c:1165:5: warning: variable ‘requiredLength’ set but not used [-Wunused-but-set-variable] requiredLength = 0; ^~~~~~~~~~~~~~ newviewGenericSpecial.c:1164:5: warning: unused variable ‘availableLength’ [-Wunused-variable] availableLength = tr->partitionData[model].xSpaceVector[(tInfo->pNumber - tr->mxtips - 1)], ^~~~~~~~~~~~~~~ mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o makenewzGenericSpecial.o makenewzGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o bipartitionList.o bipartitionList.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o restartHashTable.o restartHashTable.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o byteFile.o byteFile.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o partitionAssignment.o partitionAssignment.c partitionAssignment.c: In function ‘printAssignment’: partitionAssignment.c:457:21: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid); ~~^ ~~~~~~~~ %u partitionAssignment.c:457:25: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid); ~~^ ~~~~~~~ %u partitionAssignment.c: In function ‘printAssignments’: partitionAssignment.c:470:18: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId); ~~^ ~~~~~~~~ %u partitionAssignment.c:470:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId); ~~^ ~~~~~~~ %u partitionAssignment.c: In function ‘printLoad’: partitionAssignment.c:498:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%d\t%lu\n", i, numsPerProc[i], sitesPerProc[i]); ~~^ ~~~~~~~~~~~~~~~ %u mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o communication.o communication.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_USE_OMP -fopenmp -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -Wall -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o quartets.o quartets.c quartets.c: In function ‘computeQuartets’: quartets.c:494:11: warning: ‘f’ may be used uninitialized in this function [-Wmaybe-uninitialized] fflush(f); ^~~~~~~~~ mpicc -o examl-OMP axml.o optimizeModel.o trash.o searchAlgo.o topologies.o treeIO.o models.o evaluatePartialGenericSpecial.o evaluateGenericSpecial.o newviewGenericSpecial.o makenewzGenericSpecial.o bipartitionList.o restartHashTable.o byteFile.o partitionAssignment.o communication.o quartets.o -lm -fopenmp -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/examl-3.0.21/examl' make[2]: Entering directory '/build/examl-3.0.21/examl' rm -f *.o examl mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o axml.o axml.c In function ‘initializePartitions’, inlined from ‘initializeTree.isra.6’ at axml.c:2216:3, inlined from ‘main’ at axml.c:2629:5: axml.c:2120:40: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] *modelWeights = (unsigned long*) calloc(tr->NumberOfModels, sizeof(unsigned long)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from axml.c:44: axml.c: In function ‘main’: /usr/include/stdlib.h:541:14: note: in a call to allocation function ‘calloc’ declared here extern void *calloc (size_t __nmemb, size_t __size) ^~~~~~ mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o optimizeModel.o optimizeModel.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o trash.o trash.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o searchAlgo.o searchAlgo.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o topologies.o topologies.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o treeIO.o treeIO.c mpicc -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O1 -c -o models.o models.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluatePartialGenericSpecial.o evaluatePartialGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluateGenericSpecial.o evaluateGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o newviewGenericSpecial.o newviewGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o makenewzGenericSpecial.o makenewzGenericSpecial.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o bipartitionList.o bipartitionList.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o restartHashTable.o restartHashTable.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o byteFile.o byteFile.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o partitionAssignment.o partitionAssignment.c partitionAssignment.c: In function ‘printAssignment’: partitionAssignment.c:457:21: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid); ~~^ ~~~~~~~~ %u partitionAssignment.c:457:25: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid); ~~^ ~~~~~~~ %u partitionAssignment.c: In function ‘printAssignments’: partitionAssignment.c:470:18: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId); ~~^ ~~~~~~~~ %u partitionAssignment.c:470:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId); ~~^ ~~~~~~~ %u partitionAssignment.c: In function ‘printLoad’: partitionAssignment.c:498:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] printf("%d\t%d\t%lu\n", i, numsPerProc[i], sitesPerProc[i]); ~~^ ~~~~~~~~~~~~~~~ %u mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o communication.o communication.c mpicc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -D_GNU_SOURCE -D__SIM_SSE3 -msse3 -fomit-frame-pointer -funroll-loops -D_OPTIMIZED_FUNCTIONS -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o quartets.o quartets.c mpicc -o examl axml.o optimizeModel.o trash.o searchAlgo.o topologies.o treeIO.o models.o evaluatePartialGenericSpecial.o evaluateGenericSpecial.o newviewGenericSpecial.o makenewzGenericSpecial.o bipartitionList.o restartHashTable.o byteFile.o partitionAssignment.o communication.o quartets.o -lm -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/examl-3.0.21/examl' /usr/bin/make --directory=parser -f Makefile.SSE3.gcc make[2]: Entering directory '/build/examl-3.0.21/parser' rm -f *.o parse-examl gcc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -fomit-frame-pointer -O2 -D_GNU_SOURCE -msse -funroll-loops -Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused -Wunused-function -Wunused-parameter -Wunused-value -Wunused-variable -Wformat -Wformat-nonliteral -Wparentheses -Wsequence-point -Wuninitialized -Wundef -Wbad-function-cast -Wdate-time -D_FORTIFY_SOURCE=2 -c -o axml.o axml.c axml.c: In function ‘genericBaseFrequencies’: axml.c:2506:19: warning: comparison is always true due to limited range of data type [-Wtype-limits] if(yptr[j] >= 0 && yptr[j] < 20) ^~ gcc -g -O2 -ffile-prefix-map=/build/examl-3.0.21=. -fstack-protector-strong -Wformat -Werror=format-security -fomit-frame-pointer -O2 -D_GNU_SOURCE -msse -funroll-loops -Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused -Wunused-function -Wunused-parameter -Wunused-value -Wunused-variable -Wformat -Wformat-nonliteral -Wparentheses -Wsequence-point -Wuninitialized -Wundef -Wbad-function-cast -Wdate-time -D_FORTIFY_SOURCE=2 -c -o parsePartitions.o parsePartitions.c gcc -o parse-examl axml.o parsePartitions.o -lm -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/examl-3.0.21/parser' make[1]: Leaving directory '/build/examl-3.0.21' dh_auto_test -O--sourcedirectory=examl create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --sourcedirectory=examl dh_testroot -O--sourcedirectory=examl dh_prep -O--sourcedirectory=examl dh_auto_install -O--sourcedirectory=examl dh_install -O--sourcedirectory=examl dh_installdocs -O--sourcedirectory=examl dh_installchangelogs -O--sourcedirectory=examl dh_installman -O--sourcedirectory=examl dh_installinit -O--sourcedirectory=examl dh_perl -O--sourcedirectory=examl dh_link -O--sourcedirectory=examl dh_strip_nondeterminism -O--sourcedirectory=examl dh_compress -O--sourcedirectory=examl dh_fixperms -O--sourcedirectory=examl dh_missing -O--sourcedirectory=examl dh_strip -O--sourcedirectory=examl dh_makeshlibs -O--sourcedirectory=examl dh_shlibdeps -O--sourcedirectory=examl dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/examl/usr/lib/examl/bin/examl debian/examl/usr/lib/examl/bin/examl-AVX debian/examl/usr/lib/examl/bin/examl-OMP-AVX debian/examl/usr/lib/examl/bin/examl-OMP were not linked against libpthread.so.0 (they use none of the library's symbols) dh_installdeb -O--sourcedirectory=examl dh_gencontrol -O--sourcedirectory=examl dh_md5sums -O--sourcedirectory=examl dh_builddeb -O--sourcedirectory=examl dpkg-deb: building package 'examl' in '../examl_3.0.21-2_i386.deb'. dpkg-deb: building package 'examl-dbgsym' in '../examl-dbgsym_3.0.21-2_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../examl_3.0.21-2_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: 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/57013 and its subdirectories I: Current time: Fri Jun 25 07:31:53 -12 2021 I: pbuilder-time-stamp: 1624649513 Sat May 23 13:08:55 UTC 2020 I: 1st build successful. Starting 2nd build on remote node profitbricks-build2-i386.debian.net. Sat May 23 13:08:55 UTC 2020 I: Preparing to do remote build '2' on profitbricks-build2-i386.debian.net. Sat May 23 13:26:50 UTC 2020 I: Deleting $TMPDIR on profitbricks-build2-i386.debian.net. Sat May 23 13:26:50 UTC 2020 I: examl_3.0.21-2_i386.changes: Format: 1.8 Date: Mon, 02 Jul 2018 11:32:28 +0200 Source: examl Binary: examl examl-dbgsym Architecture: i386 Version: 3.0.21-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: examl - Exascale Maximum Likelihood (ExaML) code for phylogenetic inferen Closes: 902848 Changes: examl (3.0.21-2) unstable; urgency=medium . * export OMPI_MCA_rmaps_base_oversubscribe=1 in autopkgtest script Closes: #902848 Checksums-Sha1: e1ea33577b8d7c31833e201b26fe215c657b38d0 1888636 examl-dbgsym_3.0.21-2_i386.deb c86089076adaf16d6fd0ef3ecdae537607099306 5781 examl_3.0.21-2_i386.buildinfo 616b95c2097f0bfe90c81d814db23c84e85aeddc 868956 examl_3.0.21-2_i386.deb Checksums-Sha256: 8b35298afffff20064261e49a49e91ac1aed30fb961f8cf4c96f2bd7617ea76a 1888636 examl-dbgsym_3.0.21-2_i386.deb 8eaf33bfed1bc6ef7eb65d77e37d23aa15499b3661d20d0271109eaa955087b8 5781 examl_3.0.21-2_i386.buildinfo d4bbe22a1cda9c3e72d4b350f5f84ff6b8295deedca2718146badf9b7279b2de 868956 examl_3.0.21-2_i386.deb Files: 71bc76926c25de934fce18019f01ece3 1888636 debug optional examl-dbgsym_3.0.21-2_i386.deb 262afca21424f0612722edfa8b26c359 5781 science optional examl_3.0.21-2_i386.buildinfo e20ec84bf69c305b84e62e143e40aed7 868956 science optional examl_3.0.21-2_i386.deb Sat May 23 13:26:52 UTC 2020 I: diffoscope 144 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.qsoLR8M0cE/examl_3.0.21-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.qsoLR8M0cE/examl_3.0.21-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.qsoLR8M0cE/examl_3.0.21-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.qsoLR8M0cE/b1/examl_3.0.21-2_i386.changes /srv/reproducible-results/rbuild-debian/tmp.qsoLR8M0cE/b2/examl_3.0.21-2_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.500s) 0.500s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.069s) 0.069s 10 calls diffoscope.comparators.binary.FilesystemFile Sat May 23 13:26:55 UTC 2020 I: diffoscope 144 found no differences in the changes files, and a .buildinfo file also exists. Sat May 23 13:26:55 UTC 2020 I: examl from buster built successfully and reproducibly on i386. Sat May 23 13:26:56 UTC 2020 I: Submitting .buildinfo files to external archives: Sat May 23 13:26:56 UTC 2020 I: Submitting 8.0K b1/examl_3.0.21-2_i386.buildinfo.asc Sat May 23 13:26:57 UTC 2020 I: Submitting 8.0K b2/examl_3.0.21-2_i386.buildinfo.asc Sat May 23 13:26:58 UTC 2020 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat May 23 13:26:58 UTC 2020 I: Done submitting .buildinfo files. Sat May 23 13:26:58 UTC 2020 I: Removing signed examl_3.0.21-2_i386.buildinfo.asc files: removed './b1/examl_3.0.21-2_i386.buildinfo.asc' removed './b2/examl_3.0.21-2_i386.buildinfo.asc'