Sun Sep 26 02:26:14 UTC 2021 I: starting to build autodocksuite/bullseye/armhf on jenkins on '2021-09-26 02:26' Sun Sep 26 02:26:14 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_31/7393/console.log Sun Sep 26 02:26:14 UTC 2021 I: Downloading source for bullseye/autodocksuite=4.2.6-8 --2021-09-26 02:26:17-- http://cdn-fastly.deb.debian.org/debian/pool/main/a/autodocksuite/autodocksuite_4.2.6-8.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2373 (2.3K) Saving to: ‘autodocksuite_4.2.6-8.dsc’ 0K .. 100% 103M=0s 2021-09-26 02:26:17 (103 MB/s) - ‘autodocksuite_4.2.6-8.dsc’ saved [2373/2373] Sun Sep 26 02:26:17 UTC 2021 I: autodocksuite_4.2.6-8.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: autodocksuite Binary: autodock, autogrid, autodock-test, autogrid-test, autodock-getdata Architecture: any all Version: 4.2.6-8 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Andreas Tille , Thorsten Alteholz Homepage: http://autodock.scripps.edu/ Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/autodocksuite Vcs-Git: https://salsa.debian.org/med-team/autodocksuite.git Testsuite: autopkgtest Testsuite-Triggers: python3 Build-Depends: debhelper-compat (= 13), python3 Package-List: autodock deb science optional arch=any autodock-getdata deb science optional arch=all autodock-test deb science optional arch=all autogrid deb science optional arch=any autogrid-test deb science optional arch=all Checksums-Sha1: 84cc69d93a391544138de138f93a446b48c3f95b 35438010 autodocksuite_4.2.6.orig.tar.gz 3ddfca875a629ca79437b798121b0e43795f741a 18912 autodocksuite_4.2.6-8.debian.tar.xz Checksums-Sha256: 4b24ce4baf216a5e1a6a79bb664eeed684aed17cede64ff0061aa1bcc17874c4 35438010 autodocksuite_4.2.6.orig.tar.gz 26547897a30974fb5e1c49ff77eaf88e644f0da9b6ba267f91558690d3af5dee 18912 autodocksuite_4.2.6-8.debian.tar.xz Files: f4942c8e8c47aca7f3a2ae8794259067 35438010 autodocksuite_4.2.6.orig.tar.gz 565351681cef0b839aafc8c6fbbfed5b 18912 autodocksuite_4.2.6-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl/WgdkRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHbqQ//TeABWWHYXyI6Lanmm+xuNGv/kJ2kTpRt xqspz/NGs5+R8MsInQU6Dk7WS/Pbv4AmDM2nCqcp33YRG9xtJDAAPwBWZhz4mBQq hYnvUGde63hcON1RCt2YB1YbsZiAFQ5za7DfWXDcAwVNG96S1Ys13LcFntEIXTTy w0N4Un1j0sikkERSPjfNqVFzzrbgLHruXRu3tvtqAKa8Mu92ZkfdwLj7YSTmPhE3 ftmDyQ0kvmte9GzeRmLlvFLJ+sv9q4lMs2GuARJ4swORF5/GEu1ozex/FpuF80vX PmsCrOjzKkrySORyIzqCadJii0moYf3PJFE+cEXfgNuUjnn826by3xcnr83IU2U/ /WUCGl1t1s9zeasNWMYpG+C7SjW+KvZ1zaoIhZnHoTRdDUYG4M+Dqbtitx6z5X0v miohhKoPBX8vaGV1YzMQO9CFrYg+3KCe8iI7e4wjnn1CIKDEQnTr2LMIaqw/DPSj Xq1CjmII7gifgT9znkCIklJ2tFezxU4GfQnbDxD0ptLLnVxSYNO1NKuR6fH9mMQk R8KXBXg9h9IVmYGYsiL0hXXMsHDm4AQsMp3pm8UiBI6kZFZTJ1fFKPMqtwKPuzf7 HKTGn65Lj3pgvMQPWLJe2n0tWQ7v1oq6huVXsX9Na6N6DaDUHI5Fk2lCDUxSXnjf jKmv0zSOWCY= =6r0W -----END PGP SIGNATURE----- Sun Sep 26 02:26:17 UTC 2021 I: Checking whether the package is not for us Sun Sep 26 02:26:17 UTC 2021 I: Starting 1st build on remote node virt64c-armhf-rb.debian.net. Sun Sep 26 02:26:17 UTC 2021 I: Preparing to do remote build '1' on virt64c-armhf-rb.debian.net. Sun Sep 26 02:35:37 UTC 2021 I: Deleting $TMPDIR on virt64c-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Sep 25 14:26:30 -12 2021 I: pbuilder-time-stamp: 1632623190 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [autodocksuite_4.2.6-8.dsc] I: copying [./autodocksuite_4.2.6.orig.tar.gz] I: copying [./autodocksuite_4.2.6-8.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.jWtUOMgD/trustedkeys.kbx': General error gpgv: Signature made Sun Dec 13 09:04:25 2020 -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 ./autodocksuite_4.2.6-8.dsc dpkg-source: info: extracting autodocksuite in autodocksuite-4.2.6 dpkg-source: info: unpacking autodocksuite_4.2.6.orig.tar.gz dpkg-source: info: unpacking autodocksuite_4.2.6-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying create_fake_autoreconf_files.patch dpkg-source: info: applying csh2bash.patch dpkg-source: info: applying mayhem.patch dpkg-source: info: applying 2to3.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/13951/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,-fixfilepath parallel=3' DISTRIBUTION='' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='275260e01a5644669502a72548062c0b' 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='13951' 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/tmp.82a3f6no5U/pbuilderrc_Tuz1 --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.82a3f6no5U/b1 --logfile b1/build.log autodocksuite_4.2.6-8.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://10.0.0.15:8000/' I: uname -a Linux virt64c 5.10.0-8-arm64 #1 SMP Debian 5.10.46-5 (2021-09-23) aarch64 GNU/Linux I: ls -l /bin total 3580 -rwxr-xr-x 1 root root 816764 Aug 4 08:25 bash -rwxr-xr-x 3 root root 26052 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 9636 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 26668 Sep 22 2020 cat -rwxr-xr-x 1 root root 43104 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 38984 Sep 22 2020 chmod -rwxr-xr-x 1 root root 43112 Sep 22 2020 chown -rwxr-xr-x 1 root root 92616 Sep 22 2020 cp -rwxr-xr-x 1 root root 75524 Dec 10 2020 dash -rwxr-xr-x 1 root root 75880 Sep 22 2020 date -rwxr-xr-x 1 root root 55436 Sep 22 2020 dd -rwxr-xr-x 1 root root 59912 Sep 22 2020 df -rwxr-xr-x 1 root root 96764 Sep 22 2020 dir -rwxr-xr-x 1 root root 55012 Jul 28 07:09 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 22508 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 22496 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 47492 Jul 28 07:09 findmnt -rwsr-xr-x 1 root root 26076 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 124508 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 64212 Mar 2 2021 gzip -rwxr-xr-x 1 root root 13784 Nov 6 2019 hostname -rwxr-xr-x 1 root root 43180 Sep 22 2020 ln -rwxr-xr-x 1 root root 35068 Feb 7 2020 login -rwxr-xr-x 1 root root 96764 Sep 22 2020 ls -rwxr-xr-x 1 root root 99940 Jul 28 07:09 lsblk -rwxr-xr-x 1 root root 51408 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 43184 Sep 22 2020 mknod -rwxr-xr-x 1 root root 30780 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 34408 Jul 28 07:09 more -rwsr-xr-x 1 root root 34400 Jul 28 07:09 mount -rwxr-xr-x 1 root root 9824 Jul 28 07:09 mountpoint -rwxr-xr-x 1 root root 88524 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 26652 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash -rwxr-xr-x 1 root root 30740 Sep 22 2020 readlink -rwxr-xr-x 1 root root 43104 Sep 22 2020 rm -rwxr-xr-x 1 root root 30732 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 14144 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Sep 20 21:26 sh -> dash -rwxr-xr-x 1 root root 22532 Sep 22 2020 sleep -rwxr-xr-x 1 root root 55360 Sep 22 2020 stty -rwsr-xr-x 1 root root 46704 Jul 28 07:09 su -rwxr-xr-x 1 root root 22532 Sep 22 2020 sync -rwxr-xr-x 1 root root 340872 Feb 16 2021 tar -rwxr-xr-x 1 root root 9808 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 67696 Sep 22 2020 touch -rwxr-xr-x 1 root root 22496 Sep 22 2020 true -rwxr-xr-x 1 root root 9636 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 22108 Jul 28 07:09 umount -rwxr-xr-x 1 root root 22520 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 96764 Sep 22 2020 vdir -rwxr-xr-x 1 root root 38512 Jul 28 07:09 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/13951/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), python3 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19398 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 python3; however: Package python3 is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libicu67{a} libmagic-mgc{a} libmagic1{a} libmpdec3{a} libpipeline1{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} libsigsegv2{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} po-debconf{a} python3{a} python3-minimal{a} python3.9{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 43 newly installed, 0 to remove and 0 not upgraded. Need to get 22.7 MB of archives. After unpacking 80.9 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main armhf bsdextrautils armhf 2.36.1-8 [138 kB] Get: 2 http://deb.debian.org/debian bullseye/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 3 http://deb.debian.org/debian bullseye/main armhf groff-base armhf 1.22.4-6 [847 kB] Get: 4 http://deb.debian.org/debian bullseye/main armhf libpipeline1 armhf 1.5.3-1 [30.1 kB] Get: 5 http://deb.debian.org/debian bullseye/main armhf man-db armhf 2.9.4-2 [1319 kB] Get: 6 http://deb.debian.org/debian bullseye/main armhf libpython3.9-minimal armhf 3.9.2-1 [790 kB] Get: 7 http://deb.debian.org/debian bullseye/main armhf libexpat1 armhf 2.2.10-2 [76.3 kB] Get: 8 http://deb.debian.org/debian bullseye/main armhf python3.9-minimal armhf 3.9.2-1 [1630 kB] Get: 9 http://deb.debian.org/debian bullseye/main armhf python3-minimal armhf 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main armhf media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main armhf libmpdec3 armhf 2.5.1-1 [74.9 kB] Get: 12 http://deb.debian.org/debian bullseye/main armhf readline-common all 8.1-1 [73.7 kB] Get: 13 http://deb.debian.org/debian bullseye/main armhf libreadline8 armhf 8.1-1 [147 kB] Get: 14 http://deb.debian.org/debian bullseye/main armhf libpython3.9-stdlib armhf 3.9.2-1 [1608 kB] Get: 15 http://deb.debian.org/debian bullseye/main armhf python3.9 armhf 3.9.2-1 [466 kB] Get: 16 http://deb.debian.org/debian bullseye/main armhf libpython3-stdlib armhf 3.9.2-3 [21.4 kB] Get: 17 http://deb.debian.org/debian bullseye/main armhf python3 armhf 3.9.2-3 [37.9 kB] Get: 18 http://deb.debian.org/debian bullseye/main armhf sensible-utils all 0.0.14 [14.8 kB] Get: 19 http://deb.debian.org/debian bullseye/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB] Get: 20 http://deb.debian.org/debian bullseye/main armhf libmagic1 armhf 1:5.39-3 [117 kB] Get: 21 http://deb.debian.org/debian bullseye/main armhf file armhf 1:5.39-3 [68.1 kB] Get: 22 http://deb.debian.org/debian bullseye/main armhf gettext-base armhf 0.21-4 [171 kB] Get: 23 http://deb.debian.org/debian bullseye/main armhf libsigsegv2 armhf 2.13-1 [34.0 kB] Get: 24 http://deb.debian.org/debian bullseye/main armhf m4 armhf 1.4.18-5 [192 kB] Get: 25 http://deb.debian.org/debian bullseye/main armhf autoconf all 2.69-14 [313 kB] Get: 26 http://deb.debian.org/debian bullseye/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 27 http://deb.debian.org/debian bullseye/main armhf automake all 1:1.16.3-2 [814 kB] Get: 28 http://deb.debian.org/debian bullseye/main armhf autopoint all 0.21-4 [510 kB] Get: 29 http://deb.debian.org/debian bullseye/main armhf libdebhelper-perl all 13.3.4 [189 kB] Get: 30 http://deb.debian.org/debian bullseye/main armhf libtool all 2.4.6-15 [513 kB] Get: 31 http://deb.debian.org/debian bullseye/main armhf dh-autoreconf all 20 [17.1 kB] Get: 32 http://deb.debian.org/debian bullseye/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 33 http://deb.debian.org/debian bullseye/main armhf libsub-override-perl all 0.09-2 [10.2 kB] Get: 34 http://deb.debian.org/debian bullseye/main armhf libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 35 http://deb.debian.org/debian bullseye/main armhf dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 36 http://deb.debian.org/debian bullseye/main armhf libelf1 armhf 0.183-1 [161 kB] Get: 37 http://deb.debian.org/debian bullseye/main armhf dwz armhf 0.13+20210201-1 [179 kB] Get: 38 http://deb.debian.org/debian bullseye/main armhf libicu67 armhf 67.1-7 [8319 kB] Get: 39 http://deb.debian.org/debian bullseye/main armhf libxml2 armhf 2.9.10+dfsg-6.7 [602 kB] Get: 40 http://deb.debian.org/debian bullseye/main armhf gettext armhf 0.21-4 [1243 kB] Get: 41 http://deb.debian.org/debian bullseye/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 42 http://deb.debian.org/debian bullseye/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 43 http://deb.debian.org/debian bullseye/main armhf debhelper all 13.3.4 [1049 kB] Fetched 22.7 MB in 7s (3144 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19398 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-8_armhf.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../1-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../2-groff-base_1.22.4-6_armhf.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../3-libpipeline1_1.5.3-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../4-man-db_2.9.4-2_armhf.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libpython3.9-minimal:armhf. Preparing to unpack .../5-libpython3.9-minimal_3.9.2-1_armhf.deb ... Unpacking libpython3.9-minimal:armhf (3.9.2-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../6-libexpat1_2.2.10-2_armhf.deb ... Unpacking libexpat1:armhf (2.2.10-2) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../7-python3.9-minimal_3.9.2-1_armhf.deb ... Unpacking python3.9-minimal (3.9.2-1) ... Setting up libpython3.9-minimal:armhf (3.9.2-1) ... Setting up libexpat1:armhf (2.2.10-2) ... Setting up python3.9-minimal (3.9.2-1) ... Selecting previously unselected package python3-minimal. (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 ... 20265 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_armhf.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package libmpdec3:armhf. 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Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/autodocksuite-4.2.6/ && 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 > ../autodocksuite_4.2.6-8_source.changes dpkg-buildpackage: info: source package autodocksuite dpkg-buildpackage: info: source version 4.2.6-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/autodocksuite-4.2.6' dh_auto_clean --sourcedirectory=autodock dh_auto_clean --sourcedirectory=autogrid rm -rf autodock/usr autogrid/usr rm -rf autodock/compile autogrid/compile rm -rf autogrid/mingw_* autogrid/parse_param_line.* autogrid/printdate.* autogrid/printhms.* autogrid/read_parameter_library* autogrid/stop.* autogrid/timesys* if [ -d debian/autodock_save ] ; then mv debian/autodock_save/* autodock; rmdir debian/autodock_save ; fi if [ -d debian/autogrid_save ] ; then mv debian/autogrid_save/* autogrid; rmdir debian/autogrid_save ; fi # remove test results rm -rf autodock/Tests/popfile autodock/Tests/test_1pgp*.dlg rm -rf autodock_testresults rm -rf autogrid/Tests/hsg1_sm.*.map autogrid/Tests/hsg1_sm.glg autogrid/Tests/hsg1_sm.maps* autogrid/Tests/test_x1* autogrid/Tests/x1hpv.*.map autogrid/Tests/x1hpv.maps.* rm -rf autogrid_testresults find . -name "*.pyc" -delete make[1]: Leaving directory '/build/autodocksuite-4.2.6' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/autodocksuite-4.2.6' mkdir -p debian/autodock_save cd autodock && cp -a Makefile.in aclocal.m4 config.guess config.sub configure ../debian/autodock_save && autoreconf -i configure.ac:36: installing './compile' dh_auto_configure --sourcedirectory=autodock cd autodock && ./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 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes /build/autodocksuite-4.2.6/autodock/missing: Unknown '--is-lightweight' option Try '/build/autodocksuite-4.2.6/autodock/missing --help' for more information configure: WARNING: 'missing' script is too old or missing checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for gawk... (cached) mawk checking for g++... g++ 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 we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for ranlib... ranlib checking build system type... arm-unknown-linux-gnueabihf checking host system type... arm-unknown-linux-gnueabihf checking for gcc... gcc checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for size_t... yes checking whether struct tm is in sys/time.h or time.h... time.h checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for gethostname... yes checking for getpid... yes checking for GetProcessId... no checking for fchmod... yes checking for setlinebuf... yes checking for sysconf... yes checking for times... yes checking for getrusage... yes checking for pow... no checking for sqrt... no checking for strncasecmp... yes checking whether we are using the GNU C++ compiler... (cached) yes checking whether g++ accepts -g... (cached) yes checking dependency style of g++... (cached) none checking for g++ option to support OpenMP... -fopenmp checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: executing depfiles commands mkdir -p debian/autogrid_save cd autogrid && cp -a Makefile.in aclocal.m4 config.guess config.sub configure ../debian/autogrid_save && autoreconf -i configure.ac:24: installing './compile' dh_auto_configure --sourcedirectory=autogrid cd autogrid && ./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 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes /build/autodocksuite-4.2.6/autogrid/missing: Unknown '--is-lightweight' option Try '/build/autodocksuite-4.2.6/autogrid/missing --help' for more information configure: WARNING: 'missing' script is too old or missing checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ 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 we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking build system type... arm-unknown-linux-gnueabihf checking host system type... arm-unknown-linux-gnueabihf checking for gcc... gcc checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for sqrt in -lm... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for an ANSI C-conforming const... yes checking whether struct tm is in sys/time.h or time.h... time.h checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for gethostname... yes checking for getpid... yes checking for GetProcessId... no checking for fchmod... yes checking for setlinebuf... yes checking for sysconf... yes checking for times... yes checking for getrusage... yes checking for pow... yes checking for sqrt... yes checking for strncasecmp... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: executing depfiles commands make[1]: Leaving directory '/build/autodocksuite-4.2.6' debian/rules override_dh_auto_build make[1]: Entering directory '/build/autodocksuite-4.2.6' dh_auto_build --sourcedirectory=autodock cd autodock && make -j3 make[2]: Entering directory '/build/autodocksuite-4.2.6/autodock' rm -f default_parameters.h sh ./paramdat2h.csh ./AD4_parameters.dat ./AD4.1_bound.dat > default_parameters.h make all-am make[3]: Entering directory '/build/autodocksuite-4.2.6/autodock' g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-main.o `test -f 'main.cc' || echo './'`main.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-alea.o `test -f 'alea.cc' || echo './'`alea.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-analysis.o `test -f 'analysis.cc' || echo './'`analysis.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-atom_parameter_manager.o `test -f 'atom_parameter_manager.cc' || echo './'`atom_parameter_manager.cc main.cc:798:74: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 798 | (void) fprintf(logFile, " Compiled on %s at %s\n\n\n", __DATE__, __TIME__); | ^~~~~~~~ main.cc:798:84: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 798 | (void) fprintf(logFile, " Compiled on %s at %s\n\n\n", __DATE__, __TIME__); | ^~~~~~~~ main.cc:3490: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 3490 | #pragma omp parallel for \ | g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-banner.o `test -f 'banner.cc' || echo './'`banner.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-bestpdb.o `test -f 'bestpdb.cc' || echo './'`bestpdb.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-calculateEnergies.o `test -f 'calculateEnergies.cc' || echo './'`calculateEnergies.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-call_glss.o `test -f 'call_glss.cc' || echo './'`call_glss.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-call_ls.o `test -f 'call_ls.cc' || echo './'`call_ls.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-center_ligand.o `test -f 'center_ligand.cc' || echo './'`center_ligand.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-changeState.o `test -f 'changeState.cc' || echo './'`changeState.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-check_header_float.o `test -f 'check_header_float.cc' || echo './'`check_header_float.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-check_header_int.o `test -f 'check_header_int.cc' || echo './'`check_header_int.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-check_header_line.o `test -f 'check_header_line.cc' || echo './'`check_header_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-cluster_analysis.o `test -f 'cluster_analysis.cc' || echo './'`cluster_analysis.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-clmode.o `test -f 'clmode.cc' || echo './'`clmode.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-cnv_state_to_coords.o `test -f 'cnv_state_to_coords.cc' || echo './'`cnv_state_to_coords.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-com.o `test -f 'com.cc' || echo './'`com.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-conformation_sampler.o `test -f 'conformation_sampler.cc' || echo './'`conformation_sampler.cc com.cc:238: warning: ignoring '#pragma omp critical' [-Wunknown-pragmas] 238 | #pragma omp critical | g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-dimLibrary.o `test -f 'dimLibrary.cc' || echo './'`dimLibrary.cc conformation_sampler.cc: In constructor 'ConformationSampler::ConformationSampler(const State&, int, Eval*, int, FILE*)': conformation_sampler.cc:99:10: warning: variable 'base_q' set but not used [-Wunused-but-set-variable] 99 | Quat base_q = probe_point.readQuat(); | ^~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-distdepdiel.o `test -f 'distdepdiel.cc' || echo './'`distdepdiel.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-stateLibrary.o `test -f 'stateLibrary.cc' || echo './'`stateLibrary.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-readfield.o `test -f 'readfield.cc' || echo './'`readfield.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-readmap.o `test -f 'readmap.cc' || echo './'`readmap.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-readPDBQT.o `test -f 'readPDBQT.cc' || echo './'`readPDBQT.cc readfield.cc: In function 'void readfield(GridMapSetInfo*, char*, const clock_t&, const tms&, int, FILE*)': readfield.cc:83:17: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 83 | (void) fgets(inputline, LINE_LEN, fldFile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readfield.cc:108:17: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 108 | (void) fgets(inputline, LINE_LEN, fldFile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readfield.cc:116:17: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 116 | (void) fgets(inputline, LINE_LEN, fldFile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readfield.cc:123:17: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 123 | (void) fgets(inputline, LINE_LEN, fldFile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-read_parameter_library.o `test -f 'read_parameter_library.cc' || echo './'`read_parameter_library.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-eval.o `test -f 'eval.cc' || echo './'`eval.cc readPDBQT.cc: In function 'Molecule readPDBQT(char*, int, int*, Real (*)[3], Real*, Boole*, int*, int*, char (*)[5], char*, char*, Boole, char (*)[128], int*, int*, Boole*, int*, int*, Real*, Real*, int*, int*, int (*)[2048], Real (*)[3], int*, int*, NonbondParam*, const clock_t&, const tms&, const char*, int*, int*, int, char (*)[256], int*, int, int, FILE*)': readPDBQT.cc:133:18: warning: variable 'B_has_conect_records' set but not used [-Wunused-but-set-variable] 133 | Boole B_has_conect_records = FALSE; | ^~~~~~~~~~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-gencau.o `test -f 'gencau.cc' || echo './'`gencau.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-getrms.o `test -f 'getrms.cc' || echo './'`getrms.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-get_atom_type.o `test -f 'get_atom_type.cc' || echo './'`get_atom_type.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-getInitialState.o `test -f 'getInitialState.cc' || echo './'`getInitialState.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-getpdbcrds.o `test -f 'getpdbcrds.cc' || echo './'`getpdbcrds.cc get_atom_type.cc: In function 'int get_atom_type(const char*)': get_atom_type.cc:53:9: warning: variable 'bond_index' set but not used [-Wunused-but-set-variable] 53 | int bond_index = -1; | ^~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-gs.o `test -f 'gs.cc' || echo './'`gs.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-initautodock.o `test -f 'initautodock.cc' || echo './'`initautodock.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-input_state.o `test -f 'input_state.cc' || echo './'`input_state.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-investigate.o `test -f 'investigate.cc' || echo './'`investigate.cc input_state.cc: In function 'int input_state(State*, FILE*, const char*, int, int*, Real*, Real*, char*)': input_state.cc:70:18: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 70 | (void) fgets(myline, LINELEN, fp); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-linpack.o `test -f 'linpack.cc' || echo './'`linpack.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-ls.o `test -f 'ls.cc' || echo './'`ls.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-mapping.o `test -f 'mapping.cc' || echo './'`mapping.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-mingw_getrusage.o `test -f 'mingw_getrusage.cc' || echo './'`mingw_getrusage.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-minmeanmax.o `test -f 'minmeanmax.cc' || echo './'`minmeanmax.cc ls.cc: In member function 'virtual Boole Solis_Wets::SW(Phenotype&, int, FILE*)': ls.cc:92:9: warning: unused variable 'thisQuat' [-Wunused-variable] 92 | Quat thisQuat, prevQuat, startQuat; | ^~~~~~~~ ls.cc:92:19: warning: unused variable 'prevQuat' [-Wunused-variable] 92 | Quat thisQuat, prevQuat, startQuat; | ^~~~~~~~ ls.cc:92:29: warning: unused variable 'startQuat' [-Wunused-variable] 92 | Quat thisQuat, prevQuat, startQuat; | ^~~~~~~~~ minmeanmax.cc: In function 'void minmeanmax(FILE*, const Population&, int, const GridMapSetInfo*)': minmeanmax.cc:56:76: warning: variable 'best' set but not used [-Wunused-but-set-variable] 56 | double minimum[ 7+MAX_TORS ], sum[ 7+MAX_TORS ], maximum[ 7+MAX_TORS ], best[ 7+MAX_TORS ]; | ^~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-mkNewState.o `test -f 'mkNewState.cc' || echo './'`mkNewState.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-mkTorTree.o `test -f 'mkTorTree.cc' || echo './'`mkTorTree.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-mkRandomState.o `test -f 'mkRandomState.cc' || echo './'`mkRandomState.cc mkTorTree.cc:456:5: warning: 'int check_atomnumber(int, const int*, int, int, FILE*)' defined but not used [-Wunused-function] 456 | int check_atomnumber( const int number, const int *atomnumber, const int nrecord, | ^~~~~~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-nonbonds.o `test -f 'nonbonds.cc' || echo './'`nonbonds.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-openfile.o `test -f 'openfile.cc' || echo './'`openfile.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-output_state.o `test -f 'output_state.cc' || echo './'`output_state.cc In file included from nonbonds.cc:35: mdist.h: In function 'void mdist()': mdist.h:32:25: warning: operation on 'mindist[0][0]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:89:5: note: in expansion of macro 'set_minmax' 89 | set_minmax(C, C, 1.20, 1.545); // mindist[C][C] = 1.20, p. 3510 ; maxdist[C][C] = 1.545, p. 3511 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[0][0]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:89:5: note: in expansion of macro 'set_minmax' 89 | set_minmax(C, C, 1.20, 1.545); // mindist[C][C] = 1.20, p. 3510 ; maxdist[C][C] = 1.545, p. 3511 | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[1][1]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:96:5: note: in expansion of macro 'set_minmax' 96 | set_minmax(N, N, 1.0974, 1.128); // mindist[N][N] = 1.0974, p. 3513 ; maxdist[N][N] = 1.128, p. 3515 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[1][1]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:96:5: note: in expansion of macro 'set_minmax' 96 | set_minmax(N, N, 1.0974, 1.128); // mindist[N][N] = 1.0974, p. 3513 ; maxdist[N][N] = 1.128, p. 3515 | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[2][2]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:102:5: note: in expansion of macro 'set_minmax' 102 | set_minmax(O, O, 1.208, 1.51); // p.3513, p.3515 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[2][2]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:102:5: note: in expansion of macro 'set_minmax' 102 | set_minmax(O, O, 1.208, 1.51); // p.3513, p.3515 | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[3][3]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:107:5: note: in expansion of macro 'set_minmax' 107 | set_minmax(H, H, 100.,-100.); // impossible values to prevent such bonds from forming. | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[3][3]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:107:5: note: in expansion of macro 'set_minmax' 107 | set_minmax(H, H, 100.,-100.); // impossible values to prevent such bonds from forming. | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[4][4]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:111:5: note: in expansion of macro 'set_minmax' 111 | set_minmax(XX, XX, 0.9, 2.1); // AutoDock 3 defaults | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[4][4]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:111:5: note: in expansion of macro 'set_minmax' 111 | set_minmax(XX, XX, 0.9, 2.1); // AutoDock 3 defaults | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[5][5]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:114:5: note: in expansion of macro 'set_minmax' 114 | set_minmax(P, P, 2.18, 2.23); // mindist[P][P] = 2.18, p. 3513 ; maxdist[P][P] = 2.23, p. 3513 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[5][5]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:114:5: note: in expansion of macro 'set_minmax' 114 | set_minmax(P, P, 2.18, 2.23); // mindist[P][P] = 2.18, p. 3513 ; maxdist[P][P] = 2.23, p. 3513 | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[6][6]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:116:5: note: in expansion of macro 'set_minmax' 116 | set_minmax(S, S, 2.03, 2.05); // mindist[S][S] = 2.03, p. 3515 ; maxdist[S][S] = 2.05, p. 3515 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[6][6]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:116:5: note: in expansion of macro 'set_minmax' 116 | set_minmax(S, S, 2.03, 2.05); // mindist[S][S] = 2.03, p. 3515 ; maxdist[S][S] = 2.05, p. 3515 | ^~~~~~~~~~ nonbonds.cc: In function 'void printbonds(int, const int*, const int (*)[16], const char*, int, int, FILE*)': nonbonds.cc:250:6: warning: '?:' using integer constants in boolean context [-Wint-in-bool-context] 248 | for (int j=0; j< | ~~ 249 | B_print_all_bonds | ~~~~~~~~~~~~~~~~~ 250 | ? MAX_NBONDS // loop over all the slots for this atom's "j" bonds | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 | : nbonds[i]; // loop over this atom's "j" bonds | ~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-parse_dpf_line.o `test -f 'parse_dpf_line.cc' || echo './'`parse_dpf_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-parse_param_line.o `test -f 'parse_param_line.cc' || echo './'`parse_param_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-parse_PDBQT_line.o `test -f 'parse_PDBQT_line.cc' || echo './'`parse_PDBQT_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-parse_trj_line.o `test -f 'parse_trj_line.cc' || echo './'`parse_trj_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-parsetypes.o `test -f 'parsetypes.cc' || echo './'`parsetypes.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-print_2x.o `test -f 'print_2x.cc' || echo './'`print_2x.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-print_atomic_energies.o `test -f 'print_atomic_energies.cc' || echo './'`print_atomic_energies.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-print_avsfld.o `test -f 'print_avsfld.cc' || echo './'`print_avsfld.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-writePDBQT.o `test -f 'writePDBQT.cc' || echo './'`writePDBQT.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-print_rem.o `test -f 'print_rem.cc' || echo './'`print_rem.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-printdate.o `test -f 'printdate.cc' || echo './'`printdate.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-printEnergies.o `test -f 'printEnergies.cc' || echo './'`printEnergies.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-printhms.o `test -f 'printhms.cc' || echo './'`printhms.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-prClusterHist.o `test -f 'prClusterHist.cc' || echo './'`prClusterHist.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-prInitialState.o `test -f 'prInitialState.cc' || echo './'`prInitialState.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-prTorConList.o `test -f 'prTorConList.cc' || echo './'`prTorConList.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-pso.o `test -f 'pso.cc' || echo './'`pso.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-qmultiply.o `test -f 'qmultiply.cc' || echo './'`qmultiply.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-qtransform.o `test -f 'qtransform.cc' || echo './'`qtransform.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-quicksort.o `test -f 'quicksort.cc' || echo './'`quicksort.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-ranlib.o `test -f 'ranlib.cc' || echo './'`ranlib.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-rep.o `test -f 'rep.cc' || echo './'`rep.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-scauchy.o `test -f 'scauchy.cc' || echo './'`scauchy.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-setflags.o `test -f 'setflags.cc' || echo './'`setflags.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-simanneal.o `test -f 'simanneal.cc' || echo './'`simanneal.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-sort_enrg.o `test -f 'sort_enrg.cc' || echo './'`sort_enrg.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-stack.o `test -f 'stack.cc' || echo './'`stack.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-stop.o `test -f 'stop.cc' || echo './'`stop.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-strindex.o `test -f 'strindex.cc' || echo './'`strindex.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-success.o `test -f 'success.cc' || echo './'`success.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-support.o `test -f 'support.cc' || echo './'`support.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-swap.o `test -f 'swap.cc' || echo './'`swap.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-threadlog.o `test -f 'threadlog.cc' || echo './'`threadlog.cc threadlog.cc:72: warning: ignoring '#pragma omp critical' [-Wunknown-pragmas] 72 | #pragma omp critical | g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-timesys.o `test -f 'timesys.cc' || echo './'`timesys.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-timesyshms.o `test -f 'timesyshms.cc' || echo './'`timesyshms.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-torNorVec.o `test -f 'torNorVec.cc' || echo './'`torNorVec.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-torsion.o `test -f 'torsion.cc' || echo './'`torsion.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-trilinterp.o `test -f 'trilinterp.cc' || echo './'`trilinterp.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-usage.o `test -f 'usage.cc' || echo './'`usage.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-weedbonds.o `test -f 'weedbonds.cc' || echo './'`weedbonds.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-warn_bad_file.o `test -f 'warn_bad_file.cc' || echo './'`warn_bad_file.cc trilinterp.cc: In function 'Real trilinterp(int, int, const Real (*)[3], const Real*, const Real*, const int*, MapType*, const GridMapSetInfo*, const int*, EnergyComponent*, EnergyComponent*, EnergyComponent*)': trilinterp.cc:98:22: warning: variable 'u1' set but not used [-Wunused-but-set-variable] 98 | register int u1, v1, w1; | ^~ trilinterp.cc:98:27: warning: variable 'v1' set but not used [-Wunused-but-set-variable] 98 | register int u1, v1, w1; | ^~ trilinterp.cc:98:32: warning: variable 'w1' set but not used [-Wunused-but-set-variable] 98 | register int u1, v1, w1; | ^~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-coliny.o `test -f 'coliny.cc' || echo './'`coliny.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-eintcal.o `test -f 'eintcal.cc' || echo './'`eintcal.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-eintcalPrint.o `test -f 'eintcalPrint.cc' || echo './'`eintcalPrint.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-intnbtable.o `test -f 'intnbtable.cc' || echo './'`intnbtable.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4-nbe.o `test -f 'nbe.cc' || echo './'`nbe.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-main.o `test -f 'main.cc' || echo './'`main.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-alea.o `test -f 'alea.cc' || echo './'`alea.cc main.cc:798:74: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 798 | (void) fprintf(logFile, " Compiled on %s at %s\n\n\n", __DATE__, __TIME__); | ^~~~~~~~ main.cc:798:84: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 798 | (void) fprintf(logFile, " Compiled on %s at %s\n\n\n", __DATE__, __TIME__); | ^~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-analysis.o `test -f 'analysis.cc' || echo './'`analysis.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-atom_parameter_manager.o `test -f 'atom_parameter_manager.cc' || echo './'`atom_parameter_manager.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-banner.o `test -f 'banner.cc' || echo './'`banner.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-bestpdb.o `test -f 'bestpdb.cc' || echo './'`bestpdb.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-calculateEnergies.o `test -f 'calculateEnergies.cc' || echo './'`calculateEnergies.cc main.cc: In function 'int main(int, const char**)': main.cc:3282:7: warning: unused variable 'thread_num' [-Wunused-variable] 3282 | int thread_num=omp_get_thread_num(); | ^~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-call_glss.o `test -f 'call_glss.cc' || echo './'`call_glss.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-call_ls.o `test -f 'call_ls.cc' || echo './'`call_ls.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-center_ligand.o `test -f 'center_ligand.cc' || echo './'`center_ligand.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-changeState.o `test -f 'changeState.cc' || echo './'`changeState.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-check_header_float.o `test -f 'check_header_float.cc' || echo './'`check_header_float.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-check_header_int.o `test -f 'check_header_int.cc' || echo './'`check_header_int.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-check_header_line.o `test -f 'check_header_line.cc' || echo './'`check_header_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-cluster_analysis.o `test -f 'cluster_analysis.cc' || echo './'`cluster_analysis.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-clmode.o `test -f 'clmode.cc' || echo './'`clmode.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-cnv_state_to_coords.o `test -f 'cnv_state_to_coords.cc' || echo './'`cnv_state_to_coords.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-com.o `test -f 'com.cc' || echo './'`com.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-conformation_sampler.o `test -f 'conformation_sampler.cc' || echo './'`conformation_sampler.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-dimLibrary.o `test -f 'dimLibrary.cc' || echo './'`dimLibrary.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-distdepdiel.o `test -f 'distdepdiel.cc' || echo './'`distdepdiel.cc conformation_sampler.cc: In constructor 'ConformationSampler::ConformationSampler(const State&, int, Eval*, int, FILE*)': conformation_sampler.cc:99:10: warning: variable 'base_q' set but not used [-Wunused-but-set-variable] 99 | Quat base_q = probe_point.readQuat(); | ^~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-stateLibrary.o `test -f 'stateLibrary.cc' || echo './'`stateLibrary.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-readfield.o `test -f 'readfield.cc' || echo './'`readfield.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-readmap.o `test -f 'readmap.cc' || echo './'`readmap.cc readfield.cc: In function 'void readfield(GridMapSetInfo*, char*, const clock_t&, const tms&, int, FILE*)': readfield.cc:83:17: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 83 | (void) fgets(inputline, LINE_LEN, fldFile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readfield.cc:108:17: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 108 | (void) fgets(inputline, LINE_LEN, fldFile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readfield.cc:116:17: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 116 | (void) fgets(inputline, LINE_LEN, fldFile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readfield.cc:123:17: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 123 | (void) fgets(inputline, LINE_LEN, fldFile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-readPDBQT.o `test -f 'readPDBQT.cc' || echo './'`readPDBQT.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-read_parameter_library.o `test -f 'read_parameter_library.cc' || echo './'`read_parameter_library.cc readPDBQT.cc: In function 'Molecule readPDBQT(char*, int, int*, Real (*)[3], Real*, Boole*, int*, int*, char (*)[5], char*, char*, Boole, char (*)[128], int*, int*, Boole*, int*, int*, Real*, Real*, int*, int*, int (*)[2048], Real (*)[3], int*, int*, NonbondParam*, const clock_t&, const tms&, const char*, int*, int*, int, char (*)[256], int*, int, int, FILE*)': readPDBQT.cc:133:18: warning: variable 'B_has_conect_records' set but not used [-Wunused-but-set-variable] 133 | Boole B_has_conect_records = FALSE; | ^~~~~~~~~~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-eval.o `test -f 'eval.cc' || echo './'`eval.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-gencau.o `test -f 'gencau.cc' || echo './'`gencau.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-getrms.o `test -f 'getrms.cc' || echo './'`getrms.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-get_atom_type.o `test -f 'get_atom_type.cc' || echo './'`get_atom_type.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-getInitialState.o `test -f 'getInitialState.cc' || echo './'`getInitialState.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-getpdbcrds.o `test -f 'getpdbcrds.cc' || echo './'`getpdbcrds.cc get_atom_type.cc: In function 'int get_atom_type(const char*)': get_atom_type.cc:53:9: warning: variable 'bond_index' set but not used [-Wunused-but-set-variable] 53 | int bond_index = -1; | ^~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-gs.o `test -f 'gs.cc' || echo './'`gs.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-initautodock.o `test -f 'initautodock.cc' || echo './'`initautodock.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-input_state.o `test -f 'input_state.cc' || echo './'`input_state.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-investigate.o `test -f 'investigate.cc' || echo './'`investigate.cc input_state.cc: In function 'int input_state(State*, FILE*, const char*, int, int*, Real*, Real*, char*)': input_state.cc:70:18: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 70 | (void) fgets(myline, LINELEN, fp); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-linpack.o `test -f 'linpack.cc' || echo './'`linpack.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-ls.o `test -f 'ls.cc' || echo './'`ls.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-mapping.o `test -f 'mapping.cc' || echo './'`mapping.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-mingw_getrusage.o `test -f 'mingw_getrusage.cc' || echo './'`mingw_getrusage.cc ls.cc: In member function 'virtual Boole Solis_Wets::SW(Phenotype&, int, FILE*)': ls.cc:92:9: warning: unused variable 'thisQuat' [-Wunused-variable] 92 | Quat thisQuat, prevQuat, startQuat; | ^~~~~~~~ ls.cc:92:19: warning: unused variable 'prevQuat' [-Wunused-variable] 92 | Quat thisQuat, prevQuat, startQuat; | ^~~~~~~~ ls.cc:92:29: warning: unused variable 'startQuat' [-Wunused-variable] 92 | Quat thisQuat, prevQuat, startQuat; | ^~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-minmeanmax.o `test -f 'minmeanmax.cc' || echo './'`minmeanmax.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-mkNewState.o `test -f 'mkNewState.cc' || echo './'`mkNewState.cc minmeanmax.cc: In function 'void minmeanmax(FILE*, const Population&, int, const GridMapSetInfo*)': minmeanmax.cc:56:76: warning: variable 'best' set but not used [-Wunused-but-set-variable] 56 | double minimum[ 7+MAX_TORS ], sum[ 7+MAX_TORS ], maximum[ 7+MAX_TORS ], best[ 7+MAX_TORS ]; | ^~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-mkTorTree.o `test -f 'mkTorTree.cc' || echo './'`mkTorTree.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-mkRandomState.o `test -f 'mkRandomState.cc' || echo './'`mkRandomState.cc mkTorTree.cc:456:5: warning: 'int check_atomnumber(int, const int*, int, int, FILE*)' defined but not used [-Wunused-function] 456 | int check_atomnumber( const int number, const int *atomnumber, const int nrecord, | ^~~~~~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-nonbonds.o `test -f 'nonbonds.cc' || echo './'`nonbonds.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-openfile.o `test -f 'openfile.cc' || echo './'`openfile.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-output_state.o `test -f 'output_state.cc' || echo './'`output_state.cc In file included from nonbonds.cc:35: mdist.h: In function 'void mdist()': mdist.h:32:25: warning: operation on 'mindist[0][0]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:89:5: note: in expansion of macro 'set_minmax' 89 | set_minmax(C, C, 1.20, 1.545); // mindist[C][C] = 1.20, p. 3510 ; maxdist[C][C] = 1.545, p. 3511 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[0][0]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:89:5: note: in expansion of macro 'set_minmax' 89 | set_minmax(C, C, 1.20, 1.545); // mindist[C][C] = 1.20, p. 3510 ; maxdist[C][C] = 1.545, p. 3511 | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[1][1]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:96:5: note: in expansion of macro 'set_minmax' 96 | set_minmax(N, N, 1.0974, 1.128); // mindist[N][N] = 1.0974, p. 3513 ; maxdist[N][N] = 1.128, p. 3515 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[1][1]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:96:5: note: in expansion of macro 'set_minmax' 96 | set_minmax(N, N, 1.0974, 1.128); // mindist[N][N] = 1.0974, p. 3513 ; maxdist[N][N] = 1.128, p. 3515 | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[2][2]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:102:5: note: in expansion of macro 'set_minmax' 102 | set_minmax(O, O, 1.208, 1.51); // p.3513, p.3515 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[2][2]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:102:5: note: in expansion of macro 'set_minmax' 102 | set_minmax(O, O, 1.208, 1.51); // p.3513, p.3515 | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[3][3]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:107:5: note: in expansion of macro 'set_minmax' 107 | set_minmax(H, H, 100.,-100.); // impossible values to prevent such bonds from forming. | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[3][3]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:107:5: note: in expansion of macro 'set_minmax' 107 | set_minmax(H, H, 100.,-100.); // impossible values to prevent such bonds from forming. | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[4][4]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:111:5: note: in expansion of macro 'set_minmax' 111 | set_minmax(XX, XX, 0.9, 2.1); // AutoDock 3 defaults | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[4][4]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:111:5: note: in expansion of macro 'set_minmax' 111 | set_minmax(XX, XX, 0.9, 2.1); // AutoDock 3 defaults | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[5][5]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:114:5: note: in expansion of macro 'set_minmax' 114 | set_minmax(P, P, 2.18, 2.23); // mindist[P][P] = 2.18, p. 3513 ; maxdist[P][P] = 2.23, p. 3513 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[5][5]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:114:5: note: in expansion of macro 'set_minmax' 114 | set_minmax(P, P, 2.18, 2.23); // mindist[P][P] = 2.18, p. 3513 ; maxdist[P][P] = 2.23, p. 3513 | ^~~~~~~~~~ mdist.h:32:25: warning: operation on 'mindist[6][6]' may be undefined [-Wsequence-point] 32 | mindist[(a1)][(a2)] = (mindist[(a2)][(a1)] = (min)-BOND_LENGTH_TOLERANCE);\ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:116:5: note: in expansion of macro 'set_minmax' 116 | set_minmax(S, S, 2.03, 2.05); // mindist[S][S] = 2.03, p. 3515 ; maxdist[S][S] = 2.05, p. 3515 | ^~~~~~~~~~ mdist.h:33:25: warning: operation on 'maxdist[6][6]' may be undefined [-Wsequence-point] 33 | maxdist[(a1)][(a2)] = (maxdist[(a2)][(a1)] = (max)+BOND_LENGTH_TOLERANCE) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mdist.h:116:5: note: in expansion of macro 'set_minmax' 116 | set_minmax(S, S, 2.03, 2.05); // mindist[S][S] = 2.03, p. 3515 ; maxdist[S][S] = 2.05, p. 3515 | ^~~~~~~~~~ nonbonds.cc: In function 'void printbonds(int, const int*, const int (*)[16], const char*, int, int, FILE*)': nonbonds.cc:250:6: warning: '?:' using integer constants in boolean context [-Wint-in-bool-context] 248 | for (int j=0; j< | ~~ 249 | B_print_all_bonds | ~~~~~~~~~~~~~~~~~ 250 | ? MAX_NBONDS // loop over all the slots for this atom's "j" bonds | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 | : nbonds[i]; // loop over this atom's "j" bonds | ~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-parse_dpf_line.o `test -f 'parse_dpf_line.cc' || echo './'`parse_dpf_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-parse_param_line.o `test -f 'parse_param_line.cc' || echo './'`parse_param_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-parse_PDBQT_line.o `test -f 'parse_PDBQT_line.cc' || echo './'`parse_PDBQT_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-parse_trj_line.o `test -f 'parse_trj_line.cc' || echo './'`parse_trj_line.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-parsetypes.o `test -f 'parsetypes.cc' || echo './'`parsetypes.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-print_2x.o `test -f 'print_2x.cc' || echo './'`print_2x.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-print_atomic_energies.o `test -f 'print_atomic_energies.cc' || echo './'`print_atomic_energies.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-print_avsfld.o `test -f 'print_avsfld.cc' || echo './'`print_avsfld.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-writePDBQT.o `test -f 'writePDBQT.cc' || echo './'`writePDBQT.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-print_rem.o `test -f 'print_rem.cc' || echo './'`print_rem.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-printdate.o `test -f 'printdate.cc' || echo './'`printdate.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-printEnergies.o `test -f 'printEnergies.cc' || echo './'`printEnergies.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-printhms.o `test -f 'printhms.cc' || echo './'`printhms.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-prClusterHist.o `test -f 'prClusterHist.cc' || echo './'`prClusterHist.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-prInitialState.o `test -f 'prInitialState.cc' || echo './'`prInitialState.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-prTorConList.o `test -f 'prTorConList.cc' || echo './'`prTorConList.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-pso.o `test -f 'pso.cc' || echo './'`pso.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-qmultiply.o `test -f 'qmultiply.cc' || echo './'`qmultiply.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-qtransform.o `test -f 'qtransform.cc' || echo './'`qtransform.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-quicksort.o `test -f 'quicksort.cc' || echo './'`quicksort.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-ranlib.o `test -f 'ranlib.cc' || echo './'`ranlib.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-rep.o `test -f 'rep.cc' || echo './'`rep.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-scauchy.o `test -f 'scauchy.cc' || echo './'`scauchy.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-setflags.o `test -f 'setflags.cc' || echo './'`setflags.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-simanneal.o `test -f 'simanneal.cc' || echo './'`simanneal.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-sort_enrg.o `test -f 'sort_enrg.cc' || echo './'`sort_enrg.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-stack.o `test -f 'stack.cc' || echo './'`stack.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-stop.o `test -f 'stop.cc' || echo './'`stop.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-strindex.o `test -f 'strindex.cc' || echo './'`strindex.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-success.o `test -f 'success.cc' || echo './'`success.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-support.o `test -f 'support.cc' || echo './'`support.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-swap.o `test -f 'swap.cc' || echo './'`swap.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-threadlog.o `test -f 'threadlog.cc' || echo './'`threadlog.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-timesys.o `test -f 'timesys.cc' || echo './'`timesys.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-timesyshms.o `test -f 'timesyshms.cc' || echo './'`timesyshms.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-torNorVec.o `test -f 'torNorVec.cc' || echo './'`torNorVec.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-torsion.o `test -f 'torsion.cc' || echo './'`torsion.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-trilinterp.o `test -f 'trilinterp.cc' || echo './'`trilinterp.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-usage.o `test -f 'usage.cc' || echo './'`usage.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-weedbonds.o `test -f 'weedbonds.cc' || echo './'`weedbonds.cc trilinterp.cc: In function 'Real trilinterp(int, int, const Real (*)[3], const Real*, const Real*, const int*, MapType*, const GridMapSetInfo*, const int*, EnergyComponent*, EnergyComponent*, EnergyComponent*)': trilinterp.cc:98:22: warning: variable 'u1' set but not used [-Wunused-but-set-variable] 98 | register int u1, v1, w1; | ^~ trilinterp.cc:98:27: warning: variable 'v1' set but not used [-Wunused-but-set-variable] 98 | register int u1, v1, w1; | ^~ trilinterp.cc:98:32: warning: variable 'w1' set but not used [-Wunused-but-set-variable] 98 | register int u1, v1, w1; | ^~ g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-warn_bad_file.o `test -f 'warn_bad_file.cc' || echo './'`warn_bad_file.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-coliny.o `test -f 'coliny.cc' || echo './'`coliny.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-eintcal.o `test -f 'eintcal.cc' || echo './'`eintcal.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-eintcalPrint.o `test -f 'eintcalPrint.cc' || echo './'`eintcalPrint.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-intnbtable.o `test -f 'intnbtable.cc' || echo './'`intnbtable.cc g++ -DPACKAGE_NAME=\"autodock\" -DPACKAGE_TARNAME=\"autodock\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autodock\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autodock\" -DVERSION=\"4.2.6\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_STRNCASECMP=1 -I. -DNOSQRT -DUSE_DOUBLE -DUSE_8A_NBCUTOFF -DUSE_INT_AS_FOURBYTELONG -O3 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autodock4_omp-nbe.o `test -f 'nbe.cc' || echo './'`nbe.cc g++ -O3 -Wall -Wno-write-strings -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -flto -o autodock4 autodock4-main.o autodock4-alea.o autodock4-analysis.o autodock4-atom_parameter_manager.o autodock4-banner.o autodock4-bestpdb.o autodock4-calculateEnergies.o autodock4-call_glss.o autodock4-call_ls.o autodock4-center_ligand.o autodock4-changeState.o autodock4-check_header_float.o autodock4-check_header_int.o autodock4-check_header_line.o autodock4-cluster_analysis.o autodock4-clmode.o autodock4-cnv_state_to_coords.o autodock4-com.o autodock4-conformation_sampler.o autodock4-dimLibrary.o autodock4-distdepdiel.o autodock4-stateLibrary.o autodock4-readfield.o autodock4-readmap.o autodock4-readPDBQT.o autodock4-read_parameter_library.o autodock4-eval.o autodock4-gencau.o autodock4-getrms.o autodock4-get_atom_type.o autodock4-getInitialState.o autodock4-getpdbcrds.o autodock4-gs.o autodock4-initautodock.o autodock4-input_state.o autodock4-investigate.o autodock4-linpack.o autodock4-ls.o autodock4-mapping.o autodock4-mingw_getrusage.o autodock4-minmeanmax.o autodock4-mkNewState.o autodock4-mkTorTree.o autodock4-mkRandomState.o autodock4-nonbonds.o autodock4-openfile.o autodock4-output_state.o autodock4-parse_dpf_line.o autodock4-parse_param_line.o autodock4-parse_PDBQT_line.o autodock4-parse_trj_line.o autodock4-parsetypes.o autodock4-print_2x.o autodock4-print_atomic_energies.o autodock4-print_avsfld.o autodock4-writePDBQT.o autodock4-print_rem.o autodock4-printdate.o autodock4-printEnergies.o autodock4-printhms.o autodock4-prClusterHist.o autodock4-prInitialState.o autodock4-prTorConList.o autodock4-pso.o autodock4-qmultiply.o autodock4-qtransform.o autodock4-quicksort.o autodock4-ranlib.o autodock4-rep.o autodock4-scauchy.o autodock4-setflags.o autodock4-simanneal.o autodock4-sort_enrg.o autodock4-stack.o autodock4-stop.o autodock4-strindex.o autodock4-success.o autodock4-support.o autodock4-swap.o autodock4-threadlog.o autodock4-timesys.o autodock4-timesyshms.o autodock4-torNorVec.o autodock4-torsion.o autodock4-trilinterp.o autodock4-usage.o autodock4-weedbonds.o autodock4-warn_bad_file.o autodock4-coliny.o autodock4-eintcal.o autodock4-eintcalPrint.o autodock4-intnbtable.o autodock4-nbe.o -lm g++ -O3 -Wall -Wno-write-strings -fopenmp -fopenmp -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -fopenmp -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -flto -o autodock4.omp autodock4_omp-main.o autodock4_omp-alea.o autodock4_omp-analysis.o autodock4_omp-atom_parameter_manager.o autodock4_omp-banner.o autodock4_omp-bestpdb.o autodock4_omp-calculateEnergies.o autodock4_omp-call_glss.o autodock4_omp-call_ls.o autodock4_omp-center_ligand.o autodock4_omp-changeState.o autodock4_omp-check_header_float.o autodock4_omp-check_header_int.o autodock4_omp-check_header_line.o autodock4_omp-cluster_analysis.o autodock4_omp-clmode.o autodock4_omp-cnv_state_to_coords.o autodock4_omp-com.o autodock4_omp-conformation_sampler.o autodock4_omp-dimLibrary.o autodock4_omp-distdepdiel.o autodock4_omp-stateLibrary.o autodock4_omp-readfield.o autodock4_omp-readmap.o autodock4_omp-readPDBQT.o autodock4_omp-read_parameter_library.o autodock4_omp-eval.o autodock4_omp-gencau.o autodock4_omp-getrms.o autodock4_omp-get_atom_type.o autodock4_omp-getInitialState.o autodock4_omp-getpdbcrds.o autodock4_omp-gs.o autodock4_omp-initautodock.o autodock4_omp-input_state.o autodock4_omp-investigate.o autodock4_omp-linpack.o autodock4_omp-ls.o autodock4_omp-mapping.o autodock4_omp-mingw_getrusage.o autodock4_omp-minmeanmax.o autodock4_omp-mkNewState.o autodock4_omp-mkTorTree.o autodock4_omp-mkRandomState.o autodock4_omp-nonbonds.o autodock4_omp-openfile.o autodock4_omp-output_state.o autodock4_omp-parse_dpf_line.o autodock4_omp-parse_param_line.o autodock4_omp-parse_PDBQT_line.o autodock4_omp-parse_trj_line.o autodock4_omp-parsetypes.o autodock4_omp-print_2x.o autodock4_omp-print_atomic_energies.o autodock4_omp-print_avsfld.o autodock4_omp-writePDBQT.o autodock4_omp-print_rem.o autodock4_omp-printdate.o autodock4_omp-printEnergies.o autodock4_omp-printhms.o autodock4_omp-prClusterHist.o autodock4_omp-prInitialState.o autodock4_omp-prTorConList.o autodock4_omp-pso.o autodock4_omp-qmultiply.o autodock4_omp-qtransform.o autodock4_omp-quicksort.o autodock4_omp-ranlib.o autodock4_omp-rep.o autodock4_omp-scauchy.o autodock4_omp-setflags.o autodock4_omp-simanneal.o autodock4_omp-sort_enrg.o autodock4_omp-stack.o autodock4_omp-stop.o autodock4_omp-strindex.o autodock4_omp-success.o autodock4_omp-support.o autodock4_omp-swap.o autodock4_omp-threadlog.o autodock4_omp-timesys.o autodock4_omp-timesyshms.o autodock4_omp-torNorVec.o autodock4_omp-torsion.o autodock4_omp-trilinterp.o autodock4_omp-usage.o autodock4_omp-weedbonds.o autodock4_omp-warn_bad_file.o autodock4_omp-coliny.o autodock4_omp-eintcal.o autodock4_omp-eintcalPrint.o autodock4_omp-intnbtable.o autodock4_omp-nbe.o -lm In function 'strncpy', inlined from 'setflags' at setflags.cc:293:20, inlined from 'main' at main.cc:645:14: /usr/include/arm-linux-gnueabihf/bits/string_fortified.h:106:34: warning: '__builtin___strncpy_chk' specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^ main.cc: In function 'main': setflags.cc:293:55: note: length computed here 293 | strncpy(logFileName, dock_param_fn, strlen(dock_param_fn)-4); | ^ In function 'strncpy', inlined from 'setflags' at setflags.cc:293:20, inlined from 'main' at main.cc:645:14: /usr/include/arm-linux-gnueabihf/bits/string_fortified.h:106:34: warning: '__builtin___strncpy_chk' specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^ main.cc: In function 'main': setflags.cc:293:55: note: length computed here 293 | strncpy(logFileName, dock_param_fn, strlen(dock_param_fn)-4); | ^ /usr/bin/ld: /tmp/autodock4.omp.rTHt9n.ltrans3.ltrans.o: in function `threadLogOpen(int)': ./autodock/threadlog.cc:48: warning: the use of `tempnam' is dangerous, better use `mkstemp' make[3]: Leaving directory '/build/autodocksuite-4.2.6/autodock' make[2]: Leaving directory '/build/autodocksuite-4.2.6/autodock' dh_auto_build --sourcedirectory=autogrid cd autogrid && make -j3 make[2]: Entering directory '/build/autodocksuite-4.2.6/autogrid' rm -f default_parameters.h sh ./../autodock/paramdat2h.csh ./../autodock/AD4_parameters.dat ./../autodock/AD4.1_bound.dat > default_parameters.h sh ./copyfilesfromAD make all-am make[3]: Entering directory '/build/autodocksuite-4.2.6/autogrid' g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-main.o `test -f 'main.cpp' || echo './'`main.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-check_size.o `test -f 'check_size.cpp' || echo './'`check_size.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-setflags.o `test -f 'setflags.cpp' || echo './'`setflags.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-timesys.o `test -f 'timesys.cpp' || echo './'`timesys.cpp main.cpp: In function 'int main(int, char**)': main.cpp:214:5: warning: variable 'parameter_library_found' set but not used [-Wunused-but-set-variable] 214 | int parameter_library_found = 0; | ^~~~~~~~~~~~~~~~~~~~~~~ main.cpp:263:8: warning: variable 'maptypeptr' set but not used [-Wunused-but-set-variable] 263 | char * maptypeptr; /*ptr for current map->type*/ | ^~~~~~~~~~ main.cpp:301:44: warning: variable 'nitrogen' set but not used [-Wunused-but-set-variable] 301 | int hydrogen, carbon, arom_carbon, oxygen, nitrogen; | ^~~~~~~~ main.cpp:302:21: warning: variable 'nonHB_nitrogen' set but not used [-Wunused-but-set-variable] 302 | int nonHB_hydrogen, nonHB_nitrogen, sulphur, nonHB_sulphur; | ^~~~~~~~~~~~~~ main.cpp:302:46: warning: variable 'nonHB_sulphur' set but not used [-Wunused-but-set-variable] 302 | int nonHB_hydrogen, nonHB_nitrogen, sulphur, nonHB_sulphur; | ^~~~~~~~~~~~~ main.cpp:305:5: warning: variable 'chlorine' set but not used [-Wunused-but-set-variable] 305 | int chlorine, bromine, fluorine, iodine; | ^~~~~~~~ main.cpp:305:15: warning: variable 'bromine' set but not used [-Wunused-but-set-variable] 305 | int chlorine, bromine, fluorine, iodine; | ^~~~~~~ main.cpp:305:24: warning: variable 'fluorine' set but not used [-Wunused-but-set-variable] 305 | int chlorine, bromine, fluorine, iodine; | ^~~~~~~~ main.cpp:305:34: warning: variable 'iodine' set but not used [-Wunused-but-set-variable] 305 | int chlorine, bromine, fluorine, iodine; | ^~~~~~ main.cpp:307:5: warning: variable 'map_hydrogen' set but not used [-Wunused-but-set-variable] 307 | int map_hydrogen, map_carbon, map_arom_carbon, map_oxygen, map_nitrogen; | ^~~~~~~~~~~~ main.cpp:307:19: warning: variable 'map_carbon' set but not used [-Wunused-but-set-variable] 307 | int map_hydrogen, map_carbon, map_arom_carbon, map_oxygen, map_nitrogen; | ^~~~~~~~~~ main.cpp:307:31: warning: variable 'map_arom_carbon' set but not used [-Wunused-but-set-variable] 307 | int map_hydrogen, map_carbon, map_arom_carbon, map_oxygen, map_nitrogen; | ^~~~~~~~~~~~~~~ main.cpp:307:48: warning: variable 'map_oxygen' set but not used [-Wunused-but-set-variable] 307 | int map_hydrogen, map_carbon, map_arom_carbon, map_oxygen, map_nitrogen; | ^~~~~~~~~~ main.cpp:307:60: warning: variable 'map_nitrogen' set but not used [-Wunused-but-set-variable] 307 | int map_hydrogen, map_carbon, map_arom_carbon, map_oxygen, map_nitrogen; | ^~~~~~~~~~~~ main.cpp:308:5: warning: variable 'map_nonHB_hydrogen' set but not used [-Wunused-but-set-variable] 308 | int map_nonHB_hydrogen, map_nonHB_nitrogen, map_sulphur, map_nonHB_sulphur; | ^~~~~~~~~~~~~~~~~~ main.cpp:308:25: warning: variable 'map_nonHB_nitrogen' set but not used [-Wunused-but-set-variable] 308 | int map_nonHB_hydrogen, map_nonHB_nitrogen, map_sulphur, map_nonHB_sulphur; | ^~~~~~~~~~~~~~~~~~ main.cpp:308:45: warning: variable 'map_sulphur' set but not used [-Wunused-but-set-variable] 308 | int map_nonHB_hydrogen, map_nonHB_nitrogen, map_sulphur, map_nonHB_sulphur; | ^~~~~~~~~~~ main.cpp:308:58: warning: variable 'map_nonHB_sulphur' set but not used [-Wunused-but-set-variable] 308 | int map_nonHB_hydrogen, map_nonHB_nitrogen, map_sulphur, map_nonHB_sulphur; | ^~~~~~~~~~~~~~~~~ main.cpp:309:5: warning: variable 'map_chlorine' set but not used [-Wunused-but-set-variable] 309 | int map_chlorine, map_bromine, map_fluorine, map_iodine; | ^~~~~~~~~~~~ main.cpp:309:19: warning: variable 'map_bromine' set but not used [-Wunused-but-set-variable] 309 | int map_chlorine, map_bromine, map_fluorine, map_iodine; | ^~~~~~~~~~~ main.cpp:309:32: warning: variable 'map_fluorine' set but not used [-Wunused-but-set-variable] 309 | int map_chlorine, map_bromine, map_fluorine, map_iodine; | ^~~~~~~~~~~~ main.cpp:309:46: warning: variable 'map_iodine' set but not used [-Wunused-but-set-variable] 309 | int map_chlorine, map_bromine, map_fluorine, map_iodine; | ^~~~~~~~~~ g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-timesyshms.o `test -f 'timesyshms.cpp' || echo './'`timesyshms.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-printhms.o `test -f 'printhms.cpp' || echo './'`printhms.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-prHMSfixed.o `test -f 'prHMSfixed.cpp' || echo './'`prHMSfixed.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-printdate.o `test -f 'printdate.cpp' || echo './'`printdate.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-strindex.o `test -f 'strindex.cpp' || echo './'`strindex.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-banner.o `test -f 'banner.cpp' || echo './'`banner.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-gpfparser.o `test -f 'gpfparser.cpp' || echo './'`gpfparser.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-parsetypes.o `test -f 'parsetypes.cpp' || echo './'`parsetypes.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-atom_parameter_manager.o `test -f 'atom_parameter_manager.cpp' || echo './'`atom_parameter_manager.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-read_parameter_library.o `test -f 'read_parameter_library.cpp' || echo './'`read_parameter_library.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-parse_param_line.o `test -f 'parse_param_line.cpp' || echo './'`parse_param_line.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-distdepdiel.o `test -f 'distdepdiel.cpp' || echo './'`distdepdiel.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-mingw_getrusage.o `test -f 'mingw_getrusage.cpp' || echo './'`mingw_getrusage.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-calc_vina_potential.o `test -f 'calc_vina_potential.cpp' || echo './'`calc_vina_potential.cpp g++ -DPACKAGE_NAME=\"autogrid\" -DPACKAGE_TARNAME=\"autogrid\" -DPACKAGE_VERSION=\"4.2.6\" -DPACKAGE_STRING=\"autogrid\ 4.2.6\" -DPACKAGE_BUGREPORT=\"autodock@scripps.edu\" -DPACKAGE_URL=\"\" -DPACKAGE=\"autogrid\" -DVERSION=\"4.2.6\" -DHAVE_LIBM=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_GETHOSTNAME=1 -DHAVE_GETPID=1 -DHAVE_FCHMOD=1 -DHAVE_SETLINEBUF=1 -DHAVE_SYSCONF=1 -DHAVE_TIMES=1 -DHAVE_GETRUSAGE=1 -DHAVE_POW=1 -DHAVE_SQRT=1 -DHAVE_STRNCASECMP=1 -I. -Wall -O3 -I . -I./../autodock -Wno-write-strings -DUSE_8A_NBCUTOFF -DUSE_DOUBLE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -c -o autogrid4-stop.o `test -f 'stop.cpp' || echo './'`stop.cpp calc_vina_potential.cpp: In function 'int calc_vina_potential(int, const char (*)[3], int, const char (*)[3], EnergyTables*)': calc_vina_potential.cpp:110:9: warning: variable 'hydrogen' set but not used [-Wunused-but-set-variable] 110 | int hydrogen=-1; | ^~~~~~~~ calc_vina_potential.cpp:113:9: warning: variable 'oxygen' set but not used [-Wunused-but-set-variable] 113 | int oxygen=-1; | ^~~~~~ calc_vina_potential.cpp:114:9: warning: variable 'nitrogen' set but not used [-Wunused-but-set-variable] 114 | int nitrogen=-1; | ^~~~~~~~ calc_vina_potential.cpp:115:9: warning: variable 'fluorine' set but not used [-Wunused-but-set-variable] 115 | int fluorine=-1; | ^~~~~~~~ calc_vina_potential.cpp:116:9: warning: variable 'chlorine' set but not used [-Wunused-but-set-variable] 116 | int chlorine=-1; | ^~~~~~~~ calc_vina_potential.cpp:117:9: warning: variable 'bromine' set but not used [-Wunused-but-set-variable] 117 | int bromine=-1; | ^~~~~~~ calc_vina_potential.cpp:118:9: warning: variable 'iodine' set but not used [-Wunused-but-set-variable] 118 | int iodine=-1; | ^~~~~~ g++ -g -O2 -fdebug-prefix-map=/build/autodocksuite-4.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -flto -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -flto -o autogrid4 autogrid4-main.o autogrid4-check_size.o autogrid4-setflags.o autogrid4-timesys.o autogrid4-timesyshms.o autogrid4-printhms.o autogrid4-prHMSfixed.o autogrid4-printdate.o autogrid4-strindex.o autogrid4-banner.o autogrid4-gpfparser.o autogrid4-parsetypes.o autogrid4-atom_parameter_manager.o autogrid4-read_parameter_library.o autogrid4-parse_param_line.o autogrid4-distdepdiel.o autogrid4-mingw_getrusage.o autogrid4-calc_vina_potential.o autogrid4-stop.o -lm make[3]: Leaving directory '/build/autodocksuite-4.2.6/autogrid' make[2]: Leaving directory '/build/autodocksuite-4.2.6/autogrid' make[1]: Leaving directory '/build/autodocksuite-4.2.6' debian/rules override_dh_auto_test make[1]: Entering directory '/build/autodocksuite-4.2.6' dh_auto_test --sourcedirectory=autodock cd autodock && make -j3 test VERBOSE=1 make[2]: Entering directory '/build/autodocksuite-4.2.6/autodock' Running the Python3 test_autodock4.py unit-tests on autodock4 outputdir=`pwd` ;\ umask 0 ;\ test -d $outputdir/Testruns && chmod -fR a+w $outputdir/Testruns;\ test -d $outputdir/Testruns || mkdir $outputdir/Testruns ;\ cp ./AD4.1_bound.dat $outputdir/Testruns;\ cp ./AD4_parameters.dat $outputdir/Testruns;\ cp ./Tests/*.py $outputdir/Testruns;\ cp ./Tests/*.dpf $outputdir/Testruns;\ cp ./Tests/*.pdbqt $outputdir/Testruns;\ cp ./Tests/*.map* $outputdir/Testruns;\ chmod -fR a+w $outputdir/Testruns; cd Testruns; rm -f test_*.dlg ; \ python3 ./test_autodock4.py -d . -e ../autodock4 -o . ; ............................................./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback in 1pgp_no_extension in 1pgp_wrong_extension in 1pgp_two_extensions Running ../autodock4 using DPF "./1pgp_no_extension", saving results in "./test_1pgp_no_extension.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp.fpd", saving results in "./test_1pgp.fpd.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp.dpf.dpf", saving results in "./test_1pgp.dpf.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_timepid.dpf", saving results in "./test_1pgp_timepid.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_seed01.dpf", saving results in "./test_1pgp_seed01.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_seed37.dpf", saving results in "./test_1pgp_seed37.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_seedinttime.dpf", saving results in "./test_1pgp_seedinttime.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_epdb_flexres_intelec.dpf", saving results in "./test_1pgp_epdb_flexres_intelec.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_epdb_flexres_nointelec.dpf", saving results in "./test_1pgp_epdb_flexres_nointelec.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_epdb_etables.dpf", saving results in "./test_1pgp_epdb_etables.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_numoutlev.dpf", saving results in "./test_1pgp_numoutlev.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_symoutlev.dpf", saving results in "./test_1pgp_symoutlev.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_no_outlev.dpf", saving results in "./test_1pgp_no_outlev.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_illegal_outlev.dpf", saving results in "./test_1pgp_illegal_outlev.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_illegal_symoutlev.dpf", saving results in "./test_1pgp_illegal_symoutlev.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_mixed_basic_analysis.dpf", saving results in "./test_1pgp_mixed_basic_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_mixed_adt_analysis.dpf", saving results in "./test_1pgp_mixed_adt_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_ligand_types_map_mismatch.dpf", saving results in "./test_1pgp_ligand_types_map_mismatch.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_map_truncated.dpf", saving results in "./test_1pgp_map_truncated.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_illegal_keyword.dpf", saving results in "./test_1pgp_illegal_keyword.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_no_elecmap.dpf", saving results in "./test_1pgp_no_elecmap.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_no_desolvmap.dpf", saving results in "./test_1pgp_no_desolvmap.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_no_elec_desolv_maps.dpf", saving results in "./test_1pgp_no_elec_desolv_maps.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_too_many_ligand_types.dpf", saving results in "./test_1pgp_too_many_ligand_types.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_too_many_torsions.dpf", saving results in "./test_1pgp_too_many_torsions.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_just_right_number_torsions.dpf", saving results in "./test_1pgp_just_right_number_torsions.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_two_ligands.dpf", saving results in "./test_1pgp_two_ligands.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_two_mapsets.dpf", saving results in "./test_1pgp_two_mapsets.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_unbound_set_illegal.dpf", saving results in "./test_1pgp_unbound_set_illegal.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_unbound_model_illegal.dpf", saving results in "./test_1pgp_unbound_model_illegal.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_intnbpreps.dpf", saving results in "./test_1pgp_intnbpreps.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_intnbpreps_toofew.dpf", saving results in "./test_1pgp_intnbpreps_toofew.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_intnbpreps_illegal_atom.dpf", saving results in "./test_1pgp_intnbpreps_illegal_atom.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_intnbcoeffs.dpf", saving results in "./test_1pgp_intnbcoeffs.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_ga_select_tournament.dpf", saving results in "./test_1pgp_ga_select_tournament.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_ga_select_linear_ranking.dpf", saving results in "./test_1pgp_ga_select_linear_ranking.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_rmsmode_heavy_atoms_only_noH.dpf", saving results in "./test_1pgp_rmsmode_heavy_atoms_only_noH.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_rmsmode_all_heavy_atom_pairs_only.dpf", saving results in "./test_1pgp_rmsmode_all_heavy_atom_pairs_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_rmsmode_unique_heavy_atom_pairs_only.dpf", saving results in "./test_1pgp_rmsmode_unique_heavy_atom_pairs_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_simanneal_small.dpf", saving results in "./test_1pgp_simanneal_small.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_simanneal_small_geometric_schedule.dpf", saving results in "./test_1pgp_simanneal_small_geometric_schedule.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_ligrand_ga_only.dpf", saving results in "./test_1pgp_ligrand_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_ga_only.dpf", saving results in "./test_1pgp_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_outpopfil.dpf", saving results in "./test_1pgp_outpopfil.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_flexres.dpf", saving results in "./test_1pgp_flexres.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp.dpf", saving results in "./test_1pgp.dlg": Testing that DLG exists and AutoDock successfully completed. intermol_energy is now -6.17 total_internal is now -3.23 Testing that intermolecular energy = -6.17 kcal/mol. Testing that internal energy = -3.23 kcal/mol.../build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_no_parameter_file.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ..../build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_gals_use_defaults.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ..../build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_default.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_set0.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_set10.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_model_compact.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_model_bound.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_model_extended.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_compute_unbound_extended.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_model_value.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_ligrand_ga_only.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_ga_only.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_smooth0.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_flexres.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_flexres_1_4_50.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_flexres_1_4_100.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_1_4_50.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_1_4_100.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ........... Running ../autodock4 using DPF "./1pgp_smaller.dpf", saving results in "./test_1pgp_smaller.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_no_parameter_file.dpf", saving results in "./test_1pgp_no_parameter_file.dlg": Testing that DLG exists and AutoDock successfully completed. intermol_energy is now -6.17 total_internal is now -3.23 Testing that intermolecular energy = -6.17 kcal/mol. Testing that internal energy = -3.23 kcal/mol. Running ../autodock4 using DPF "./1pgp_gals_set_sw1.dpf", saving results in "./test_1pgp_gals_set_sw1.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_no_set_psw1.dpf", saving results in "./test_1pgp_no_set_psw1.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_no_set_ga.dpf", saving results in "./test_1pgp_no_set_ga.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4 using DPF "./1pgp_gals_use_defaults.dpf", saving results in "./test_1pgp_gals_use_defaults.dlg": Testing that DLG exists and AutoDock successfully completed. intermol_energy is now -6.17 total_internal is now -3.23 Testing that intermolecular energy = -6.17 kcal/mol. Testing that internal energy = -3.23 kcal/mol. Running ../autodock4 using DPF "./1pgp_simanneal_10runs.dpf", saving results in "./test_1pgp_simanneal_10runs.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_lsonly_10runs.dpf", saving results in "./test_1pgp_lsonly_10runs.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_gals_10runs.dpf", saving results in "./test_1pgp_gals_10runs.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_unbound_default.dpf", saving results in "./test_1pgp_unbound_default.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -3.23 Testing that unbound energy = -3.23 kcal/mol. unbound_energy= -3.23 Running ../autodock4 using DPF "./1pgp_unbound_set0.dpf", saving results in "./test_1pgp_unbound_set0.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now 0.0 Testing that unbound energy = 0.00 kcal/mol. unbound_energy= 0.0 Running ../autodock4 using DPF "./1pgp_unbound_set10.dpf", saving results in "./test_1pgp_unbound_set10.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now 10.0 Testing that unbound energy = 10.00 kcal/mol. unbound_energy= 10.0 Running ../autodock4 using DPF "./1pgp_unbound_model_compact.dpf", saving results in "./test_1pgp_unbound_model_compact.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now 0.0 Testing that unbound energy = 0.00 kcal/mol. unbound_energy= 0.0 Running ../autodock4 using DPF "./1pgp_unbound_model_bound.dpf", saving results in "./test_1pgp_unbound_model_bound.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -3.23 Testing that unbound energy = -3.23 kcal/mol. unbound_energy= -3.23 Running ../autodock4 using DPF "./1pgp_unbound_model_extended.dpf", saving results in "./test_1pgp_unbound_model_extended.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -0.75 Testing that unbound energy = -0.75 kcal/mol. unbound_energy= -0.75 Running ../autodock4 using DPF "./1pgp_unbound_compute_unbound_extended.dpf", saving results in "./test_1pgp_unbound_compute_unbound_extended.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -0.75 Testing that unbound energy = -0.75 kcal/mol. unbound_energy= -0.75 Running ../autodock4 using DPF "./1pgp_unbound_model_value.dpf", saving results in "./test_1pgp_unbound_model_value.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -3.12 Testing that unbound energy = -3.12 kcal/mol. unbound_energy= -3.12 Running ../autodock4 using DPF "./1pgp_ligrand_ga_only.dpf", saving results in "./test_1pgp_ligrand_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now 1.39 Testing that binding energy = 1.39 kcal/mol. binding_energy= 1.39 Running ../autodock4 using DPF "./1pgp_ga_only.dpf", saving results in "./test_1pgp_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now -4.08 Testing that binding energy = -4.08 kcal/mol. binding_energy= -4.08 Running ../autodock4 using DPF "./1pgp_smooth0.dpf", saving results in "./test_1pgp_smooth0.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now -5.87 Testing that binding energy = -5.87 kcal/mol. binding_energy= -5.87 Running ../autodock4 using DPF "./1pgp_flexres.dpf", saving results in "./test_1pgp_flexres.dlg": Testing that DLG exists and AutoDock successfully completed. not version 4.0! RETURNING!! binding_energy is now -4.33 Testing that binding energy = -4.33 kcal/mol. binding_energy= -4.33 Running ../autodock4 using DPF "./1pgp_flexres_1_4_50.dpf", saving results in "./test_1pgp_flexres_1_4_50.dlg": Testing that DLG exists and AutoDock successfully completed. not version 4.0! RETURNING!! binding_energy is now -4.33 Testing that binding energy = -4.33 kcal/mol. binding_energy= -4.33 Running ../autodock4 using DPF "./1pgp_flexres_1_4_100.dpf", saving results in "./test_1pgp_flexres_1_4_100.dlg": Testing that DLG exists and AutoDock successfully completed. not version 4.0! RETURNING!! binding_energy is now -4.33 Testing that binding energy = -4.33 kcal/mol. binding_energy= -4.33 Running ../autodock4 using DPF "./1pgp_1_4_50.dpf", saving results in "./test_1pgp_1_4_50.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now -4.08 Testing that binding energy = -4.08 kcal/mol. binding_energy= -4.08 Running ../autodock4 using DPF "./1pgp_1_4_100.dpf", saving results in "./test_1pgp_1_4_100.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now -3.49 Testing that binding energy = -3.49 kcal/mol. binding_energy= -3.49 Running ../autodock4 using DPF "./1pgp_about_only.dpf", saving results in "./test_1pgp_about_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_multipleabouts.dpf", saving results in "./test_1pgp_multipleabouts.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_about_auto_simanneal.dpf", saving results in "./test_1pgp_about_auto_simanneal.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_about_auto_ga_only.dpf", saving results in "./test_1pgp_about_auto_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_about_auto_local_only.dpf", saving results in "./test_1pgp_about_auto_local_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_about_auto_gals.dpf", saving results in "./test_1pgp_about_auto_gals.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_ga_run_maxruns.dpf", saving results in "./test_1pgp_ga_run_maxruns.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_ga_run_maxruns_analysis.dpf", saving results in "./test_1pgp_ga_run_maxruns_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_mixed_maxruns.dpf", saving results in "./test_1pgp_mixed_maxruns.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_mixed_maxruns_analysis.dpf", saving results in "./test_1pgp_mixed_maxruns_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_mixed_maxruns_basic_analysis.dpf", saving results in "./test_1pgp_mixed_maxruns_basic_analysis.dlg":... ---------------------------------------------------------------------- Ran 84 tests in 125.013s OK Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_mixed_maxruns_adt_analysis.dpf", saving results in "./test_1pgp_mixed_maxruns_adt_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4 using DPF "./1pgp_overmaxruns.dpf", saving results in "./test_1pgp_overmaxruns.dlg": Testing that DLG exists and AutoDock did not complete. sys:1: ResourceWarning: unclosed file <_io.TextIOWrapper name='/dev/null' mode='w' encoding='UTF-8'> Running the Python3 test_autodock4.py unit-tests on autodock4.omp cd Testruns; rm -f test_*.dlg ; \ python3 ./test_autodock4.py -d . -e ../autodock4.omp -o . ; ................F............................in 1pgp_no_extension in 1pgp_wrong_extension in 1pgp_two_extensions Running ../autodock4.omp using DPF "./1pgp_no_extension", saving results in "./test_1pgp_no_extension.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp.fpd", saving results in "./test_1pgp.fpd.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp.dpf.dpf", saving results in "./test_1pgp.dpf.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_timepid.dpf", saving results in "./test_1pgp_timepid.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_seed01.dpf", saving results in "./test_1pgp_seed01.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_seed37.dpf", saving results in "./test_1pgp_seed37.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_seedinttime.dpf", saving results in "./test_1pgp_seedinttime.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_epdb_flexres_intelec.dpf", saving results in "./test_1pgp_epdb_flexres_intelec.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_epdb_flexres_nointelec.dpf", saving results in "./test_1pgp_epdb_flexres_nointelec.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_epdb_etables.dpf", saving results in "./test_1pgp_epdb_etables.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_numoutlev.dpf", saving results in "./test_1pgp_numoutlev.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_symoutlev.dpf", saving results in "./test_1pgp_symoutlev.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_no_outlev.dpf", saving results in "./test_1pgp_no_outlev.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_illegal_outlev.dpf", saving results in "./test_1pgp_illegal_outlev.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_illegal_symoutlev.dpf", saving results in "./test_1pgp_illegal_symoutlev.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_mixed_basic_analysis.dpf", saving results in "./test_1pgp_mixed_basic_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_mixed_adt_analysis.dpf", saving results in "./test_1pgp_mixed_adt_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_ligand_types_map_mismatch.dpf", saving results in "./test_1pgp_ligand_types_map_mismatch.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_map_truncated.dpf", saving results in "./test_1pgp_map_truncated.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_illegal_keyword.dpf", saving results in "./test_1pgp_illegal_keyword.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_no_elecmap.dpf", saving results in "./test_1pgp_no_elecmap.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_no_desolvmap.dpf", saving results in "./test_1pgp_no_desolvmap.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_no_elec_desolv_maps.dpf", saving results in "./test_1pgp_no_elec_desolv_maps.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_too_many_ligand_types.dpf", saving results in "./test_1pgp_too_many_ligand_types.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_too_many_torsions.dpf", saving results in "./test_1pgp_too_many_torsions.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_just_right_number_torsions.dpf", saving results in "./test_1pgp_just_right_number_torsions.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_two_ligands.dpf", saving results in "./test_1pgp_two_ligands.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_two_mapsets.dpf", saving results in "./test_1pgp_two_mapsets.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_unbound_set_illegal.dpf", saving results in "./test_1pgp_unbound_set_illegal.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_unbound_model_illegal.dpf", saving results in "./test_1pgp_unbound_model_illegal.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_intnbpreps.dpf", saving results in "./test_1pgp_intnbpreps.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_intnbpreps_toofew.dpf", saving results in "./test_1pgp_intnbpreps_toofew.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_intnbpreps_illegal_atom.dpf", saving results in "./test_1pgp_intnbpreps_illegal_atom.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_intnbcoeffs.dpf", saving results in "./test_1pgp_intnbcoeffs.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_ga_select_tournament.dpf", saving results in "./test_1pgp_ga_select_tournament.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_ga_select_linear_ranking.dpf", saving results in "./test_1pgp_ga_select_linear_ranking.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_rmsmode_heavy_atoms_only_noH.dpf", saving results in "./test_1pgp_rmsmode_heavy_atoms_only_noH.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_rmsmode_all_heavy_atom_pairs_only.dpf", saving results in "./test_1pgp_rmsmode_all_heavy_atom_pairs_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_rmsmode_unique_heavy_atom_pairs_only.dpf", saving results in "./test_1pgp_rmsmode_unique_heavy_atom_pairs_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_simanneal_small.dpf", saving results in "./test_1pgp_simanneal_small.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_simanneal_small_geometric_schedule.dpf", saving results in "./test_1pgp_simanneal_small_geometric_schedule.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_ligrand_ga_only.dpf", saving results in "./test_1pgp_ligrand_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_ga_only.dpf", saving results in "./test_1pgp_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_outpopfil.dpf", saving results in "./test_1pgp_outpopfil.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_flexres.dpf", saving results in "./test_1pgp_flexres.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp.dpf", saving results in "./test_1pgp.dlg":/build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ../build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_no_parameter_file.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ..../build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_gals_use_defaults.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ..F./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_default.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_set0.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_set10.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_model_compact.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_model_bound.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_model_extended.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_compute_unbound_extended.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_unbound_model_value.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_ligrand_ga_only.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_ga_only.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_smooth0.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_flexres.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_flexres_1_4_50.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_flexres_1_4_100.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_1_4_50.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ./build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py:91: ResourceWarning: unclosed file <_io.TextIOWrapper name='./test_1pgp_1_4_100.dlg' mode='r' encoding='UTF-8'> parser.parse( dlg ) ResourceWarning: Enable tracemalloc to get the object allocation traceback ......... Testing that DLG exists and AutoDock successfully completed. intermol_energy is now -6.17 total_internal is now -3.23 Testing that intermolecular energy = -6.17 kcal/mol. Testing that internal energy = -3.23 kcal/mol. Running ../autodock4.omp using DPF "./1pgp_smaller.dpf", saving results in "./test_1pgp_smaller.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_no_parameter_file.dpf", saving results in "./test_1pgp_no_parameter_file.dlg": Testing that DLG exists and AutoDock successfully completed. intermol_energy is now -6.17 total_internal is now -3.23 Testing that intermolecular energy = -6.17 kcal/mol. Testing that internal energy = -3.23 kcal/mol. Running ../autodock4.omp using DPF "./1pgp_gals_set_sw1.dpf", saving results in "./test_1pgp_gals_set_sw1.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_no_set_psw1.dpf", saving results in "./test_1pgp_no_set_psw1.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_no_set_ga.dpf", saving results in "./test_1pgp_no_set_ga.dlg": Testing that DLG exists and AutoDock did not complete. Running ../autodock4.omp using DPF "./1pgp_gals_use_defaults.dpf", saving results in "./test_1pgp_gals_use_defaults.dlg": Testing that DLG exists and AutoDock successfully completed. intermol_energy is now -6.17 total_internal is now -3.23 Testing that intermolecular energy = -6.17 kcal/mol. Testing that internal energy = -3.23 kcal/mol. Running ../autodock4.omp using DPF "./1pgp_simanneal_10runs.dpf", saving results in "./test_1pgp_simanneal_10runs.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_lsonly_10runs.dpf", saving results in "./test_1pgp_lsonly_10runs.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_gals_10runs.dpf", saving results in "./test_1pgp_gals_10runs.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_unbound_default.dpf", saving results in "./test_1pgp_unbound_default.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -3.23 Testing that unbound energy = -3.23 kcal/mol. unbound_energy= -3.23 Running ../autodock4.omp using DPF "./1pgp_unbound_set0.dpf", saving results in "./test_1pgp_unbound_set0.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now 0.0 Testing that unbound energy = 0.00 kcal/mol. unbound_energy= 0.0 Running ../autodock4.omp using DPF "./1pgp_unbound_set10.dpf", saving results in "./test_1pgp_unbound_set10.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now 10.0 Testing that unbound energy = 10.00 kcal/mol. unbound_energy= 10.0 Running ../autodock4.omp using DPF "./1pgp_unbound_model_compact.dpf", saving results in "./test_1pgp_unbound_model_compact.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now 0.0 Testing that unbound energy = 0.00 kcal/mol. unbound_energy= 0.0 Running ../autodock4.omp using DPF "./1pgp_unbound_model_bound.dpf", saving results in "./test_1pgp_unbound_model_bound.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -3.23 Testing that unbound energy = -3.23 kcal/mol. unbound_energy= -3.23 Running ../autodock4.omp using DPF "./1pgp_unbound_model_extended.dpf", saving results in "./test_1pgp_unbound_model_extended.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -0.75 Testing that unbound energy = -0.75 kcal/mol. unbound_energy= -0.75 Running ../autodock4.omp using DPF "./1pgp_unbound_compute_unbound_extended.dpf", saving results in "./test_1pgp_unbound_compute_unbound_extended.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -0.75 Testing that unbound energy = -0.75 kcal/mol. unbound_energy= -0.75 Running ../autodock4.omp using DPF "./1pgp_unbound_model_value.dpf", saving results in "./test_1pgp_unbound_model_value.dlg": Testing that DLG exists and AutoDock successfully completed. unbound_energy is now -3.12 Testing that unbound energy = -3.12 kcal/mol. unbound_energy= -3.12 Running ../autodock4.omp using DPF "./1pgp_ligrand_ga_only.dpf", saving results in "./test_1pgp_ligrand_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now 1.39 Testing that binding energy = 1.39 kcal/mol. binding_energy= 1.39 Running ../autodock4.omp using DPF "./1pgp_ga_only.dpf", saving results in "./test_1pgp_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now -4.08 Testing that binding energy = -4.08 kcal/mol. binding_energy= -4.08 Running ../autodock4.omp using DPF "./1pgp_smooth0.dpf", saving results in "./test_1pgp_smooth0.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now -5.87 Testing that binding energy = -5.87 kcal/mol. binding_energy= -5.87 Running ../autodock4.omp using DPF "./1pgp_flexres.dpf", saving results in "./test_1pgp_flexres.dlg": Testing that DLG exists and AutoDock successfully completed. not version 4.0! RETURNING!! binding_energy is now -4.33 Testing that binding energy = -4.33 kcal/mol. binding_energy= -4.33 Running ../autodock4.omp using DPF "./1pgp_flexres_1_4_50.dpf", saving results in "./test_1pgp_flexres_1_4_50.dlg": Testing that DLG exists and AutoDock successfully completed. not version 4.0! RETURNING!! binding_energy is now -4.33 Testing that binding energy = -4.33 kcal/mol. binding_energy= -4.33 Running ../autodock4.omp using DPF "./1pgp_flexres_1_4_100.dpf", saving results in "./test_1pgp_flexres_1_4_100.dlg": Testing that DLG exists and AutoDock successfully completed. not version 4.0! RETURNING!! binding_energy is now -4.33 Testing that binding energy = -4.33 kcal/mol. binding_energy= -4.33 Running ../autodock4.omp using DPF "./1pgp_1_4_50.dpf", saving results in "./test_1pgp_1_4_50.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now -4.08 Testing that binding energy = -4.08 kcal/mol. binding_energy= -4.08 Running ../autodock4.omp using DPF "./1pgp_1_4_100.dpf", saving results in "./test_1pgp_1_4_100.dlg": Testing that DLG exists and AutoDock successfully completed. binding_energy is now -3.49 Testing that binding energy = -3.49 kcal/mol. binding_energy= -3.49 Running ../autodock4.omp using DPF "./1pgp_about_only.dpf", saving results in "./test_1pgp_about_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_multipleabouts.dpf", saving results in "./test_1pgp_multipleabouts.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_about_auto_simanneal.dpf", saving results in "./test_1pgp_about_auto_simanneal.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_about_auto_ga_only.dpf", saving results in "./test_1pgp_about_auto_ga_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_about_auto_local_only.dpf", saving results in "./test_1pgp_about_auto_local_only.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_about_auto_gals.dpf", saving results in "./test_1pgp_about_auto_gals.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_ga_run_maxruns.dpf", saving results in "./test_1pgp_ga_run_maxruns.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_ga_run_maxruns_analysis.dpf", saving results in "./test_1pgp_ga_run_maxruns_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_mixed_maxruns.dpf", saving results in "./test_1pgp_mixed_maxruns.dlg":FFFF. ====================================================================== FAIL: test_dlg_exists (__main__.AutoDock4_1pgp_mixed_adt_analysis_test) Check that run finished and a new DLG has been computed. ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py", line 179, in test_dlg_exists self.assertEqual( self.computed, self.expected_outcome ) AssertionError: False != True ====================================================================== FAIL: test_dlg_exists (__main__.AutoDock4_1pgp_lsonly_10runs_test) Check that run finished and a new DLG has been computed. ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py", line 179, in test_dlg_exists self.assertEqual( self.computed, self.expected_outcome ) AssertionError: False != True ====================================================================== FAIL: test_dlg_exists (__main__.AutoDock4_1pgp_mixed_maxruns_test) Check that run finished and a new DLG has been computed. ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py", line 179, in test_dlg_exists self.assertEqual( self.computed, self.expected_outcome ) AssertionError: False != True ====================================================================== FAIL: test_dlg_exists (__main__.AutoDock4_1pgp_mixed_maxruns_analysis_test) Check that run finished and a new DLG has been computed. ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py", line 179, in test_dlg_exists self.assertEqual( self.computed, self.expected_outcome ) AssertionError: False != True ====================================================================== FAIL: test_dlg_exists (__main__.AutoDock4_1pgp_mixed_maxruns_basic_analysis_test) Check that run finished and a new DLG has been computed. ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py", line 179, in test_dlg_exists self.assertEqual( self.computed, self.expected_outcome ) AssertionError: False != True ====================================================================== FAIL: test_dlg_exists (__main__.AutoDock4_1pgp_mixed_maxruns_adt_analysis_test) Check that run finished and a new DLG has been computed. ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/autodocksuite-4.2.6/autodock/Testruns/./test_autodock4.py", line 179, in test_dlg_exists self.assertEqual( self.computed, self.expected_outcome ) AssertionError: False != True ---------------------------------------------------------------------- Ran 84 tests in 132.587s FAILED (failures=6) Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_mixed_maxruns_analysis.dpf", saving results in "./test_1pgp_mixed_maxruns_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_mixed_maxruns_basic_analysis.dpf", saving results in "./test_1pgp_mixed_maxruns_basic_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_mixed_maxruns_adt_analysis.dpf", saving results in "./test_1pgp_mixed_maxruns_adt_analysis.dlg": Testing that DLG exists and AutoDock successfully completed. Running ../autodock4.omp using DPF "./1pgp_overmaxruns.dpf", saving results in "./test_1pgp_overmaxruns.dlg": Testing that DLG exists and AutoDock did not complete. sys:1: ResourceWarning: unclosed file <_io.TextIOWrapper name='/dev/null' mode='w' encoding='UTF-8'> make[2]: [Makefile:4642: test] Error 1 (ignored) make[2]: Leaving directory '/build/autodocksuite-4.2.6/autodock' dh_auto_test --sourcedirectory=autogrid cd autogrid && make -j3 test VERBOSE=1 make[2]: Entering directory '/build/autodocksuite-4.2.6/autogrid' Running the Python3 test_autogrid4.py unit-tests on autogrid4 outputdir=`pwd` ;\ umask 0 ;\ test -d $outputdir/Testruns && chmod -fR a+w $outputdir/Testruns;\ test -d $outputdir/Testruns || mkdir $outputdir/Testruns ;\ cp ./Tests/AD4.1_bound.dat $outputdir/Testruns;\ cp ./Tests/*.py $outputdir/Testruns;\ cp ./Tests/*.gpf $outputdir/Testruns;\ cp ./Tests/*.pdbqt $outputdir/Testruns;\ cp ./Tests/*.map* $outputdir/Testruns;\ chmod -fR a+w $outputdir/Testruns;\ cd $outputdir/Testruns;\ python3 ./test_autogrid4.py -d . -e ../autogrid4 -o . ................................ ../autogrid4: ERROR: Not enough map keywords found. . ../autogrid4: ERROR: No electrostatic map file defined. . ../autogrid4: ERROR: No desolvation map file defined. .... ../autogrid4: ERROR: syntax error, not 6 values in NBP_R_EPS line .. ---------------------------------------------------------------------- Ran 40 tests in 27.507s OK Running ../autogrid4 using GPF "./hsg1_sm.gpf", saving results in "./hsg1_sm.glg": Running ../autogrid4 using GPF "./hsg1_sm_no_parameter_file.gpf", saving results in "./hsg1_sm.glg": Running ../autogrid4 using GPF "./hsg1_no_receptor_types.gpf", saving results in "./hsg1_sm.glg": Running ../autogrid4 using GPF "./hsg1_no_receptor_types.gpf", saving results in "./hsg1_sm.glg": Running ../autogrid4 using GPF "./x1hpv_CASE1.gpf", saving results in "./test_x1hpv_CASE1.glg": after call to run_AutoGrid Testing that GLG exists and AutoGrid did not complete. Running ../autogrid4 using GPF "./x1hpv_CASE2.gpf", saving results in "./test_x1hpv_CASE2.glg": after call to run_AutoGrid Testing that GLG exists and AutoGrid did not complete. Running ../autogrid4 using GPF "./x1hpv_CASE3.gpf", saving results in "./test_x1hpv_CASE3.glg": after call to run_AutoGrid Testing that GLG exists and AutoGrid did not complete. Running ../autogrid4 using GPF "./x1hpv_CASE0.gpf", saving results in "./test_x1hpv_CASE0.glg": after call to run_AutoGrid Testing that GLG exists and AutoGrid successfully completed. Running ../autogrid4 using GPF "./hsg1_sm_nbpreps.gpf", saving results in "./test_hsg1_sm_nbpreps.glg": after call to run_AutoGrid Testing that GLG exists and AutoGrid successfully completed. Running ../autogrid4 using GPF "./hsg1_sm_nbpreps_illegal_atom.gpf", saving results in "./test_hsg1_sm_nbpreps_illegal_atom.glg": after call to run_AutoGrid Testing that GLG exists and AutoGrid successfully completed. Running ../autogrid4 using GPF "./hsg1_sm_nbpreps_toofew.gpf", saving results in "./test_hsg1_sm_nbpreps_toofew.glg": after call to run_AutoGrid Testing that GLG exists and AutoGrid did not complete. Running ../autogrid4 using GPF "./hsg1_sm_nbpcoeffs.gpf", saving results in "./test_hsg1_sm_nbpcoeffs.glg": after call to run_AutoGrid Testing that GLG exists and AutoGrid successfully completed. make[2]: Leaving directory '/build/autodocksuite-4.2.6/autogrid' make[1]: Leaving directory '/build/autodocksuite-4.2.6' create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install-arch make[1]: Entering directory '/build/autodocksuite-4.2.6' dh_auto_install --sourcedirectory=autodock cd autodock && make -j3 install DESTDIR=/build/autodocksuite-4.2.6/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/build/autodocksuite-4.2.6/autodock' make install-am make[3]: Entering directory '/build/autodocksuite-4.2.6/autodock' make[4]: Entering directory '/build/autodocksuite-4.2.6/autodock' /bin/mkdir -p '/build/autodocksuite-4.2.6/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. /usr/bin/install -c autodock4 autodock4.omp '/build/autodocksuite-4.2.6/debian/tmp/usr/bin' make[4]: Leaving directory '/build/autodocksuite-4.2.6/autodock' make[3]: Leaving directory '/build/autodocksuite-4.2.6/autodock' make[2]: Leaving directory '/build/autodocksuite-4.2.6/autodock' dh_auto_install --sourcedirectory=autogrid cd autogrid && make -j3 install DESTDIR=/build/autodocksuite-4.2.6/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/build/autodocksuite-4.2.6/autogrid' make install-am make[3]: Entering directory '/build/autodocksuite-4.2.6/autogrid' make[4]: Entering directory '/build/autodocksuite-4.2.6/autogrid' /bin/mkdir -p '/build/autodocksuite-4.2.6/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. /usr/bin/install -c autogrid4 '/build/autodocksuite-4.2.6/debian/tmp/usr/bin' make[4]: Leaving directory '/build/autodocksuite-4.2.6/autogrid' make[3]: Leaving directory '/build/autodocksuite-4.2.6/autogrid' make[2]: Leaving directory '/build/autodocksuite-4.2.6/autogrid' make[1]: Leaving directory '/build/autodocksuite-4.2.6' debian/rules override_dh_install-indep make[1]: Entering directory '/build/autodocksuite-4.2.6' dh_install -i rm -rf /build/autodocksuite-4.2.6/debian/autodock-test/usr/share/autodock/Tests/AutoDockTools rm -rf /build/autodocksuite-4.2.6/debian/autogrid-test/usr/share/autogrid/Tests/CVS/ rm -rf /build/autodocksuite-4.2.6/debian/autodock-test/usr/share/autodock/Tests/CVS/ make[1]: Leaving directory '/build/autodocksuite-4.2.6' dh_install -Nautodock-test -Nautogrid-test -Nautodock-getdata dh_installdocs debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/autodocksuite-4.2.6' dh_installchangelogs autodock/RELEASENOTES make[1]: Leaving directory '/build/autodocksuite-4.2.6' dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms-indep make[1]: Entering directory '/build/autodocksuite-4.2.6' dh_fixperms chmod 644 /build/autodocksuite-4.2.6/debian/autodock-test/usr/share/autodock/Tests/* chmod 644 /build/autodocksuite-4.2.6/debian/autogrid-test/usr/share/autogrid/Tests/* make[1]: Leaving directory '/build/autodocksuite-4.2.6' dh_fixperms -Nautodock-test -Nautogrid-test -Nautodock-getdata debian/rules override_dh_missing make[1]: Entering directory '/build/autodocksuite-4.2.6' find debian -name autodock4.omp -delete dh_missing make[1]: Leaving directory '/build/autodocksuite-4.2.6' dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: debian/autogrid/usr/bin/autogrid4 contains an unresolvable reference to symbol __aeabi_atexit@GLIBC_2.4: it's probably a plugin dpkg-shlibdeps: warning: debian/autodock/usr/bin/autodock4 contains an unresolvable reference to symbol __aeabi_atexit@GLIBC_2.4: it's probably a plugin dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'autogrid-dbgsym' in '../autogrid-dbgsym_4.2.6-8_armhf.deb'. dpkg-deb: building package 'autodock-getdata' in '../autodock-getdata_4.2.6-8_all.deb'. dpkg-deb: building package 'autodock' in '../autodock_4.2.6-8_armhf.deb'. dpkg-deb: building package 'autodock-test' in '../autodock-test_4.2.6-8_all.deb'. dpkg-deb: building package 'autodock-dbgsym' in '../autodock-dbgsym_4.2.6-8_armhf.deb'. dpkg-deb: building package 'autogrid' in '../autogrid_4.2.6-8_armhf.deb'. dpkg-deb: building package 'autogrid-test' in '../autogrid-test_4.2.6-8_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../autodocksuite_4.2.6-8_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/13951 and its subdirectories I: Current time: Sat Sep 25 14:35:27 -12 2021 I: pbuilder-time-stamp: 1632623727 Sun Sep 26 02:35:39 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ff4a-armhf-rb.debian.net. Sun Sep 26 02:35:39 UTC 2021 I: Preparing to do remote build '2' on ff4a-armhf-rb.debian.net. Sun Sep 26 02:44:45 UTC 2021 I: Deleting $TMPDIR on ff4a-armhf-rb.debian.net. Sun Sep 26 02:44:48 UTC 2021 I: autodocksuite_4.2.6-8_armhf.changes: Format: 1.8 Date: Sun, 13 Dec 2020 21:57:26 +0100 Source: autodocksuite Binary: autodock autodock-dbgsym autodock-getdata autodock-test autogrid autogrid-dbgsym autogrid-test Architecture: armhf all Version: 4.2.6-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: autodock - analysis of ligand binding to protein structure autodock-getdata - instructions for getData to collect compounds autodock-test - test files for AutoDock autogrid - pre-calculate binding of ligands to their receptor autogrid-test - test files for AutoGrid Closes: 962109 Changes: autodocksuite (4.2.6-8) unstable; urgency=medium . * Drop Nelson A. de Oliveira since he left Debian (thanks for your previous work on this package Nelson) Closes: #962109 * Standards-Version: 4.5.1 (routine-update) * debhelper-compat 13 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * No tab in license text (routine-update) * Enable dh_missing --fail-missing Checksums-Sha1: 3925dc17b14d42342bec60b2563a85fbd6785894 456832 autodock-dbgsym_4.2.6-8_armhf.deb 08cd43dbe53790c566a07aa256686ef0f32d6dad 19332 autodock-getdata_4.2.6-8_all.deb ca94abd3b5b1cd2b87a537e9f2e40af886511672 3226756 autodock-test_4.2.6-8_all.deb 0bee7713b29eece2151c8bfb8f59e89f5200a788 155900 autodock_4.2.6-8_armhf.deb 583d68b1708bc06114d114624aa204f25b34ef56 6543 autodocksuite_4.2.6-8_armhf.buildinfo 600d250ba9f4d2ad4b93e8f1ef5dd98fd07e9718 96812 autogrid-dbgsym_4.2.6-8_armhf.deb 42bce781ba226f125f7f0dbe5fca11898f3db484 69020 autogrid-test_4.2.6-8_all.deb 7d2d5c70f4abfe8f672d30f66a9d8397f0e4af0b 46208 autogrid_4.2.6-8_armhf.deb Checksums-Sha256: 386e060b4d03a9ff41d3a51af45d40d03e7ddc044637b89f07f740c3f3f2cb61 456832 autodock-dbgsym_4.2.6-8_armhf.deb b680fb328a2bf859183091c654f1e2cd77a7ce6585bb318211e9a4e9dd112012 19332 autodock-getdata_4.2.6-8_all.deb 2977aa5e0b8a86139a4087ef5f25fe1f37a644d70c04a4d4f454df0ab4dde680 3226756 autodock-test_4.2.6-8_all.deb 1d1a6843588f84f1075f0a03ceb70e6d9ce760fc13819b1abd85be7c44beac7e 155900 autodock_4.2.6-8_armhf.deb 8dd2ff6e6cb1b77ab54ab84a67727995790a6dbd564374153a5b77279d828033 6543 autodocksuite_4.2.6-8_armhf.buildinfo 79fd0e95beed4a94a832cc89c893a9714b5c9c40c36321e2088cd1d7286e6398 96812 autogrid-dbgsym_4.2.6-8_armhf.deb b9dd25b591abcd7bc323d1b2fb2b34d1c046c2df4bea4e41712b2b52225fb556 69020 autogrid-test_4.2.6-8_all.deb ee3291b0860f9c25c80cfc4b96e9986e2a49e3ad45f2b7c59ae711e68a05d258 46208 autogrid_4.2.6-8_armhf.deb Files: a949ea8acc86fbb52dcddeddb94ca181 456832 debug optional autodock-dbgsym_4.2.6-8_armhf.deb 9b5b24f05ecf57e7fa17635682573df9 19332 science optional autodock-getdata_4.2.6-8_all.deb 678894d133fd8543ca020ff4126465fe 3226756 science optional autodock-test_4.2.6-8_all.deb 18ccd5a295280b5892bc1c8fb0b70f65 155900 science optional autodock_4.2.6-8_armhf.deb 855e311a722a026ac98d8dd3947906de 6543 science optional autodocksuite_4.2.6-8_armhf.buildinfo 5e2cd1a6ee32e6c8287cd9c74f81958a 96812 debug optional autogrid-dbgsym_4.2.6-8_armhf.deb 596530813a979e0fc814f97fc05ccfce 69020 science optional autogrid-test_4.2.6-8_all.deb e933a58675a2ba9133c22d88edee6643 46208 science optional autogrid_4.2.6-8_armhf.deb Sun Sep 26 02:45:07 UTC 2021 I: diffoscope 177 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.82a3f6no5U/autodocksuite_4.2.6-8.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.82a3f6no5U/autodocksuite_4.2.6-8.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.82a3f6no5U/autodocksuite_4.2.6-8.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.82a3f6no5U/b1/autodocksuite_4.2.6-8_armhf.changes /srv/reproducible-results/rbuild-debian/tmp.82a3f6no5U/b2/autodocksuite_4.2.6-8_armhf.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: 6.981s) 6.981s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 1.260s) 1.255s 10 calls diffoscope.comparators.binary.FilesystemFile 0.005s 8 calls abc.DotChangesFile Sun Sep 26 02:45:17 UTC 2021 I: diffoscope 177 found no differences in the changes files, and a .buildinfo file also exists. Sun Sep 26 02:45:17 UTC 2021 I: autodocksuite from bullseye built successfully and reproducibly on armhf. Sun Sep 26 02:45:24 UTC 2021 I: Submitting .buildinfo files to external archives: Sun Sep 26 02:45:24 UTC 2021 I: Submitting 8.0K b1/autodocksuite_4.2.6-8_armhf.buildinfo.asc Sun Sep 26 02:45:25 UTC 2021 I: Submitting 8.0K b2/autodocksuite_4.2.6-8_armhf.buildinfo.asc Sun Sep 26 02:45:26 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Sep 26 02:45:26 UTC 2021 I: Done submitting .buildinfo files. Sun Sep 26 02:45:26 UTC 2021 I: Removing signed autodocksuite_4.2.6-8_armhf.buildinfo.asc files: removed './b1/autodocksuite_4.2.6-8_armhf.buildinfo.asc' removed './b2/autodocksuite_4.2.6-8_armhf.buildinfo.asc'