Warning: Permanently added '172.25.95.196' (ECDSA) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 829451 --chroot fedora-rawhide-x86_64 --detached default Version: 0.22 Task: {'build_id': 829451, 'buildroot_pkgs': [], 'chroot': 'fedora-rawhide-x86_64', 'enable_net': False, 'fetch_sources_only': True, 'git_hash': '129539770a497b5ac72c94a12939573d4d5d6e9e', 'git_repo': '@scitech/openmpi4.0/bionetgen', 'memory_reqs': 2048, 'package_name': 'bionetgen', 'package_version': '2.4.0-3.fc30', 'project_dirname': 'openmpi4.0', 'project_name': 'openmpi4.0', 'project_owner': '@scitech', 'repos': [{'id': 'copr_base', 'name': 'Copr repository', 'url': 'https://copr-be.cloud.fedoraproject.org/results/@scitech/openmpi4.0/fedora-rawhide-x86_64/'}], 'source_json': {'clone_url': 'https://copr-dist-git.fedorainfracloud.org/git/@scitech/openmpi4.0/bionetgen.git', 'committish': '129539770a497b5ac72c94a12939573d4d5d6e9e'}, 'source_type': 8, 'submitter': 'orion', 'task_id': '829451-fedora-rawhide-x86_64', 'timeout': 64800, 'use_bootstrap_container': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/@scitech/openmpi4.0/bionetgen.git /tmp/tmpbdbx7olq/bionetgen --depth 500 --no-single-branch cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/@scitech/openmpi4.0/bionetgen.git', '/tmp/tmpbdbx7olq/bionetgen', '--depth', '500', '--no-single-branch'] cwd: . rc: 0 stdout: stderr: Cloning into '/tmp/tmpbdbx7olq/bionetgen'... Running: git checkout 129539770a497b5ac72c94a12939573d4d5d6e9e cmd: ['git', 'checkout', '129539770a497b5ac72c94a12939573d4d5d6e9e'] cwd: /tmp/tmpbdbx7olq/bionetgen rc: 0 stdout: stderr: Note: checking out '129539770a497b5ac72c94a12939573d4d5d6e9e'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by performing another checkout. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -b with the checkout command again. Example: git checkout -b HEAD is now at 1295397 automatic import of bionetgen 2.4.0-3.fc30 Running: cp -r . /tmp/tmp_hquel5i cmd: ['cp', '-r', '.', '/tmp/tmp_hquel5i'] cwd: /tmp/tmpbdbx7olq/bionetgen rc: 0 stdout: stderr: Generated rpkg config: [rpkg] preprocess_spec = True # auto-packing is deprecated: auto_pack = True [git] lookaside = https://copr-dist-git.fedorainfracloud.org/repo/pkgs/%(ns2)s/%(ns1)s/%(name)s/%(filename)s/%(hashtype)s/%(hash)s/%(filename)s anongiturl = https://copr-dist-git.fedorainfracloud.org/git/%(module)s Writing config into /tmp/tmpbdbx7olq/.config/rpkg.conf Running: rpkg -C /tmp/tmpbdbx7olq/.config/rpkg.conf sources --outdir /tmp/tmp_hquel5i cmd: ['rpkg', '-C', '/tmp/tmpbdbx7olq/.config/rpkg.conf', 'sources', '--outdir', '/tmp/tmp_hquel5i'] cwd: /tmp/tmpbdbx7olq/bionetgen rc: 0 stdout: Downloading bionetgen-BioNetGen-2.4.0.tar.gz from lookaside cache at copr-dist-git.fedorainfracloud.org stderr: /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated Running: unbuffer /usr/bin/mock --buildsrpm --spec /tmp/tmp_hquel5i/bionetgen.spec --sources /tmp/tmp_hquel5i --configdir /var/lib/copr-rpmbuild/results/configs --resultdir /var/lib/copr-rpmbuild/results --define %_disable_source_fetch 0 --uniqueext 1543191731.335746 -r child WARNING: Could not find required logging config file: /var/lib/copr-rpmbuild/results/configs/logging.ini. Using default... INFO: mock.py version 1.4.13 starting (python version = 3.6.5)... Start: init plugins INFO: tmpfs initialized INFO: selinux disabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins Start: run INFO: Start(/tmp/tmp_hquel5i/bionetgen.spec) Config(829451-fedora-rawhide-x86_64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/829451-fedora-rawhide-x86_64-1543191731.335746/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled HW Info plugin Mock Version: 1.4.13 INFO: Mock Version: 1.4.13 Start: dnf install 'Copr repository' 783 kB/s | 56 kB 00:00 fedora 66 MB/s | 63 MB 00:00 Last metadata expiration check: 0:00:00 ago on Mon 26 Nov 2018 12:22:13 AM UTC. Dependencies resolved. ================================================================================ Group Packages ================================================================================ Marking packages as installed by the group: @Buildsystem building group rpm-build coreutils cpio shadow-utils xz redhat-rpm-config make grep tar unzip sed which bzip2 info gzip gawk bash util-linux patch findutils diffutils fedora-release ================================================================================ Package Arch Version Repository Size ================================================================================ Installing group packages: bash x86_64 4.4.23-5.fc30 fedora 1.5 M bzip2 x86_64 1.0.6-28.fc29 fedora 51 k coreutils x86_64 8.30-8.fc30 fedora 999 k cpio x86_64 2.12-9.fc29 fedora 252 k diffutils x86_64 3.6-5.fc29 fedora 350 k fedora-release noarch 30-0.14 fedora 9.1 k findutils x86_64 1:4.6.0-21.fc30 fedora 504 k gawk x86_64 4.2.1-3.fc29 fedora 1.1 M grep x86_64 3.1-8.fc29 fedora 249 k gzip x86_64 1.9-7.fc29 fedora 153 k info x86_64 6.5-11.fc30 fedora 175 k make x86_64 1:4.2.1-10.fc29 fedora 487 k patch x86_64 2.7.6-7.fc30 fedora 123 k redhat-rpm-config noarch 125-1.fc30 fedora 59 k rpm-build x86_64 4.14.2.1-3.fc30 fedora 113 k sed x86_64 4.5-2.fc29 fedora 288 k shadow-utils x86_64 2:4.6-5.fc30 fedora 1.1 M tar x86_64 2:1.30-6.fc29 fedora 805 k unzip x86_64 6.0-42.fc30 fedora 175 k util-linux x86_64 2.33-0.1.fc30 fedora 2.3 M which x86_64 2.21-11.fc29 fedora 41 k xz x86_64 5.2.4-4.fc30 fedora 143 k Installing dependencies: audit-libs x86_64 3.0-0.4.20180831git0047a6c.fc30 fedora 107 k basesystem noarch 11-6.fc29 fedora 6.9 k binutils x86_64 2.31.1-16.fc30 fedora 5.6 M brotli x86_64 1.0.5-1.fc29 fedora 322 k bzip2-libs x86_64 1.0.6-28.fc29 fedora 39 k ca-certificates noarch 2018.2.26-2.fc30 fedora 385 k chkconfig x86_64 1.11-2.fc30 fedora 168 k coreutils-common x86_64 8.30-8.fc30 fedora 1.9 M cracklib x86_64 2.9.6-17.fc30 fedora 77 k crypto-policies noarch 20181122-1.git70769d9.fc30 fedora 46 k curl x86_64 7.62.0-1.fc30 fedora 312 k cyrus-sasl-lib x86_64 2.1.27-0.4rc7.fc30 fedora 92 k dwz x86_64 0.12-9.fc29 fedora 105 k efi-srpm-macros noarch 4-1.fc30 fedora 22 k elfutils x86_64 0.175-1.fc30 fedora 294 k elfutils-default-yama-scope noarch 0.175-1.fc30 fedora 16 k elfutils-libelf x86_64 0.175-1.fc30 fedora 178 k elfutils-libs x86_64 0.175-1.fc30 fedora 260 k expat x86_64 2.2.6-1.fc30 fedora 100 k fedora-gpg-keys noarch 30-0.2 fedora 99 k fedora-release-common noarch 30-0.14 fedora 17 k fedora-repos noarch 30-0.2 fedora 8.9 k fedora-repos-rawhide noarch 30-0.2 fedora 8.1 k file x86_64 5.34-6.fc30 fedora 49 k file-libs x86_64 5.34-6.fc30 fedora 525 k filesystem x86_64 3.9-2.fc29 fedora 1.1 M fpc-srpm-macros noarch 1.1-5.fc29 fedora 7.5 k gc x86_64 7.6.4-4.fc29 fedora 101 k gdb-headless x86_64 8.2.50.20181114-9.fc30 fedora 3.4 M gdbm-libs x86_64 1:1.18-1.fc30 fedora 49 k ghc-srpm-macros noarch 1.4.2-8.fc29 fedora 7.4 k glib2 x86_64 2.58.1-2.fc30 fedora 2.5 M glibc x86_64 2.28.9000-19.fc30 fedora 3.8 M glibc-all-langpacks x86_64 2.28.9000-19.fc30 fedora 25 M glibc-common x86_64 2.28.9000-19.fc30 fedora 805 k gmp x86_64 1:6.1.2-8.fc29 fedora 272 k gnat-srpm-macros noarch 4-4.fc30 fedora 7.9 k go-srpm-macros noarch 2-18.fc29 fedora 11 k guile x86_64 5:2.0.14-12.fc29 fedora 3.5 M keyutils-libs x86_64 1.6-1.fc30 fedora 29 k krb5-libs x86_64 1.17-1.beta1.1.fc30 fedora 709 k libacl x86_64 2.2.53-2.fc29 fedora 25 k libarchive x86_64 3.3.3-1.fc30 fedora 341 k libatomic_ops x86_64 7.6.6-1.fc29 fedora 34 k libattr x86_64 2.4.48-4.fc30 fedora 17 k libbabeltrace x86_64 1.5.6-1.fc29 fedora 197 k libblkid x86_64 2.33-0.1.fc30 fedora 145 k libcap x86_64 2.25-12.fc29 fedora 49 k libcap-ng x86_64 0.7.9-5.fc30 fedora 27 k libcom_err x86_64 1.44.4-1.fc30 fedora 26 k libcurl x86_64 7.62.0-1.fc30 fedora 252 k libdb x86_64 5.3.28-34.fc30 fedora 734 k libdb-utils x86_64 5.3.28-34.fc30 fedora 128 k libfdisk x86_64 2.33-0.1.fc30 fedora 194 k libffi x86_64 3.1-18.fc29 fedora 32 k libgcc x86_64 8.2.1-5.fc30 fedora 95 k libgcrypt x86_64 1.8.4-1.fc30 fedora 435 k libgpg-error x86_64 1.31-2.fc29 fedora 235 k libidn2 x86_64 2.0.5-2.fc29 fedora 87 k libipt x86_64 2.0-1.fc30 fedora 50 k libmetalink x86_64 0.1.3-7.fc29 fedora 29 k libmount x86_64 2.33-0.1.fc30 fedora 166 k libnghttp2 x86_64 1.35.0-1.fc30 fedora 70 k libnsl2 x86_64 1.2.0-3.20180605git4a062cf.fc30 fedora 54 k libpkgconf x86_64 1.5.3-2.fc29 fedora 35 k libpsl x86_64 0.20.2-5.fc29 fedora 58 k libpwquality x86_64 1.4.0-11.fc30 fedora 96 k libselinux x86_64 2.8-5.fc30 fedora 79 k libsemanage x86_64 2.8-6.fc30 fedora 108 k libsepol x86_64 2.8-3.fc30 fedora 280 k libsigsegv x86_64 2.11-6.fc29 fedora 26 k libsmartcols x86_64 2.33-0.1.fc30 fedora 107 k libssh x86_64 0.8.5-1.fc30 fedora 210 k libstdc++ x86_64 8.2.1-5.fc30 fedora 455 k libtasn1 x86_64 4.13-6.fc30 fedora 67 k libtirpc x86_64 1.1.4-2.rc2.fc30 fedora 96 k libtool-ltdl x86_64 2.4.6-27.fc30 fedora 34 k libunistring x86_64 0.9.10-4.fc29 fedora 416 k libutempter x86_64 1.1.6-15.fc29 fedora 25 k libuuid x86_64 2.33-0.1.fc30 fedora 26 k libverto x86_64 0.3.0-6.fc29 fedora 21 k libxcrypt x86_64 4.4.0-1.fc30 fedora 113 k libxml2 x86_64 2.9.8-4.fc29 fedora 648 k libzstd x86_64 1.3.6-1.fc30 fedora 242 k lua-libs x86_64 5.3.5-2.fc29 fedora 111 k lz4-libs x86_64 1.8.2-2.fc29 fedora 60 k mpfr x86_64 3.1.6-3.fc30 fedora 212 k ncurses x86_64 6.1-8.20180923.fc30 fedora 359 k ncurses-base noarch 6.1-8.20180923.fc30 fedora 58 k ncurses-libs x86_64 6.1-8.20180923.fc30 fedora 287 k nim-srpm-macros noarch 1-3.fc29 fedora 8.0 k ocaml-srpm-macros noarch 5-4.fc29 fedora 7.8 k openblas-srpm-macros noarch 2-4.fc29 fedora 7.2 k openldap x86_64 2.4.46-10.fc30 fedora 281 k openssl-libs x86_64 1:1.1.1-7.fc30 fedora 1.3 M p11-kit x86_64 0.23.14-1.fc30 fedora 240 k p11-kit-trust x86_64 0.23.14-1.fc30 fedora 124 k pam x86_64 1.3.1-9.fc30 fedora 629 k pcre x86_64 8.42-5.fc30 fedora 186 k pcre2 x86_64 10.32-4.fc30 fedora 235 k perl-srpm-macros noarch 1-28.fc29 fedora 8.1 k pkgconf x86_64 1.5.3-2.fc29 fedora 39 k pkgconf-m4 noarch 1.5.3-2.fc29 fedora 17 k pkgconf-pkg-config x86_64 1.5.3-2.fc29 fedora 15 k popt x86_64 1.16-16.fc30 fedora 55 k publicsuffix-list-dafsa noarch 20180723-1.fc29 fedora 54 k python-pip-wheel noarch 18.1-1.fc30 fedora 1.2 M python-setuptools-wheel noarch 40.4.3-1.fc30 fedora 274 k python-srpm-macros noarch 3-39.fc30 fedora 12 k python3-libs x86_64 3.7.1-2.fc30 fedora 7.8 M qt5-srpm-macros noarch 5.11.2-1.fc30 fedora 9.2 k readline x86_64 7.0-12.fc29 fedora 189 k rpm x86_64 4.14.2.1-3.fc30 fedora 486 k rpm-build-libs x86_64 4.14.2.1-3.fc30 fedora 93 k rpm-libs x86_64 4.14.2.1-3.fc30 fedora 271 k rust-srpm-macros noarch 6-1.fc30 fedora 8.4 k setup noarch 2.12.3-1.fc30 fedora 148 k sqlite-libs x86_64 3.25.2-1.fc30 fedora 538 k systemd-libs x86_64 239-9.git9f3aed1.fc30 fedora 460 k tzdata noarch 2018g-1.fc30 fedora 425 k xz-libs x86_64 5.2.4-4.fc30 fedora 84 k zip x86_64 3.0-23.fc29 fedora 264 k zlib x86_64 1.2.11-14.fc30 fedora 89 k zstd x86_64 1.3.6-1.fc30 fedora 343 k Transaction Summary ================================================================================ Install 146 Packages Total download size: 86 M Installed size: 445 M Downloading Packages: (1/146): gzip-1.9-7.fc29.x86_64.rpm 14 MB/s | 153 kB 00:00 (2/146): diffutils-3.6-5.fc29.x86_64.rpm 20 MB/s | 350 kB 00:00 (3/146): make-4.2.1-10.fc29.x86_64.rpm 22 MB/s | 487 kB 00:00 (4/146): redhat-rpm-config-125-1.fc30.noarch.rp 14 MB/s | 59 kB 00:00 (5/146): shadow-utils-4.6-5.fc30.x86_64.rpm 25 MB/s | 1.1 MB 00:00 (6/146): fedora-release-30-0.14.noarch.rpm 4.0 MB/s | 9.1 kB 00:00 (7/146): sed-4.5-2.fc29.x86_64.rpm 29 MB/s | 288 kB 00:00 (8/146): findutils-4.6.0-21.fc30.x86_64.rpm 18 MB/s | 504 kB 00:00 (9/146): rpm-build-4.14.2.1-3.fc30.x86_64.rpm 14 MB/s | 113 kB 00:00 (10/146): bash-4.4.23-5.fc30.x86_64.rpm 26 MB/s | 1.5 MB 00:00 (11/146): which-2.21-11.fc29.x86_64.rpm 4.2 MB/s | 41 kB 00:00 (12/146): grep-3.1-8.fc29.x86_64.rpm 17 MB/s | 249 kB 00:00 (13/146): patch-2.7.6-7.fc30.x86_64.rpm 19 MB/s | 123 kB 00:00 (14/146): info-6.5-11.fc30.x86_64.rpm 28 MB/s | 175 kB 00:00 (15/146): unzip-6.0-42.fc30.x86_64.rpm 24 MB/s | 175 kB 00:00 (16/146): cpio-2.12-9.fc29.x86_64.rpm 25 MB/s | 252 kB 00:00 (17/146): tar-1.30-6.fc29.x86_64.rpm 28 MB/s | 805 kB 00:00 (18/146): xz-5.2.4-4.fc30.x86_64.rpm 15 MB/s | 143 kB 00:00 (19/146): bzip2-1.0.6-28.fc29.x86_64.rpm 13 MB/s | 51 kB 00:00 (20/146): coreutils-8.30-8.fc30.x86_64.rpm 27 MB/s | 999 kB 00:00 (21/146): audit-libs-3.0-0.4.20180831git0047a6c 20 MB/s | 107 kB 00:00 (22/146): gawk-4.2.1-3.fc29.x86_64.rpm 29 MB/s | 1.1 MB 00:00 (23/146): libacl-2.2.53-2.fc29.x86_64.rpm 7.6 MB/s | 25 kB 00:00 (24/146): libattr-2.4.48-4.fc30.x86_64.rpm 5.5 MB/s | 17 kB 00:00 (25/146): libselinux-2.8-5.fc30.x86_64.rpm 19 MB/s | 79 kB 00:00 (26/146): libsemanage-2.8-6.fc30.x86_64.rpm 14 MB/s | 108 kB 00:00 (27/146): libxcrypt-4.4.0-1.fc30.x86_64.rpm 18 MB/s | 113 kB 00:00 (28/146): util-linux-2.33-0.1.fc30.x86_64.rpm 29 MB/s | 2.3 MB 00:00 (29/146): setup-2.12.3-1.fc30.noarch.rpm 8.0 MB/s | 148 kB 00:00 (30/146): filesystem-3.9-2.fc29.x86_64.rpm 27 MB/s | 1.1 MB 00:00 (31/146): glibc-2.28.9000-19.fc30.x86_64.rpm 30 MB/s | 3.8 MB 00:00 (32/146): ncurses-libs-6.1-8.20180923.fc30.x86_ 9.9 MB/s | 287 kB 00:00 (33/146): dwz-0.12-9.fc29.x86_64.rpm 21 MB/s | 105 kB 00:00 (34/146): efi-srpm-macros-4-1.fc30.noarch.rpm 5.2 MB/s | 22 kB 00:00 (35/146): file-5.34-6.fc30.x86_64.rpm 13 MB/s | 49 kB 00:00 (36/146): fpc-srpm-macros-1.1-5.fc29.noarch.rpm 2.3 MB/s | 7.5 kB 00:00 (37/146): ghc-srpm-macros-1.4.2-8.fc29.noarch.r 2.0 MB/s | 7.4 kB 00:00 (38/146): gnat-srpm-macros-4-4.fc30.noarch.rpm 2.2 MB/s | 7.9 kB 00:00 (39/146): go-srpm-macros-2-18.fc29.noarch.rpm 4.4 MB/s | 11 kB 00:00 (40/146): nim-srpm-macros-1-3.fc29.noarch.rpm 3.3 MB/s | 8.0 kB 00:00 (41/146): ocaml-srpm-macros-5-4.fc29.noarch.rpm 3.2 MB/s | 7.8 kB 00:00 (42/146): openblas-srpm-macros-2-4.fc29.noarch. 3.2 MB/s | 7.2 kB 00:00 (43/146): perl-srpm-macros-1-28.fc29.noarch.rpm 4.0 MB/s | 8.1 kB 00:00 (44/146): python-srpm-macros-3-39.fc30.noarch.r 5.2 MB/s | 12 kB 00:00 (45/146): qt5-srpm-macros-5.11.2-1.fc30.noarch. 4.5 MB/s | 9.2 kB 00:00 (46/146): rust-srpm-macros-6-1.fc30.noarch.rpm 3.8 MB/s | 8.4 kB 00:00 (47/146): zip-3.0-23.fc29.x86_64.rpm 30 MB/s | 264 kB 00:00 (48/146): rpm-4.14.2.1-3.fc30.x86_64.rpm 27 MB/s | 486 kB 00:00 (49/146): fedora-release-common-30-0.14.noarch. 3.6 MB/s | 17 kB 00:00 (50/146): elfutils-0.175-1.fc30.x86_64.rpm 31 MB/s | 294 kB 00:00 (51/146): guile-2.0.14-12.fc29.x86_64.rpm 24 MB/s | 3.5 MB 00:00 (52/146): elfutils-libelf-0.175-1.fc30.x86_64.r 7.7 MB/s | 178 kB 00:00 (53/146): elfutils-libs-0.175-1.fc30.x86_64.rpm 25 MB/s | 260 kB 00:00 (54/146): popt-1.16-16.fc30.x86_64.rpm 12 MB/s | 55 kB 00:00 (55/146): rpm-build-libs-4.14.2.1-3.fc30.x86_64 15 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publicsuffix-list-dafsa-20180723-1.f 7.6 MB/s | 54 kB 00:00 (145/146): cyrus-sasl-lib-2.1.27-0.4rc7.fc30.x8 22 MB/s | 92 kB 00:00 (146/146): glibc-all-langpacks-2.28.9000-19.fc3 60 MB/s | 25 MB 00:00 -------------------------------------------------------------------------------- Total 64 MB/s | 86 MB 00:01 warning: /var/lib/mock/829451-fedora-rawhide-x86_64-1543191731.335746/root/var/cache/dnf/fedora-2d95c80a1fa0a67d/packages/shadow-utils-4.6-5.fc30.x86_64.rpm: Header V3 RSA/SHA256 Signature, key ID cfc659b9: NOKEY Importing GPG key 0xCFC659B9: Userid : "Fedora (30) " Fingerprint: F1D8 EC98 F241 AAF2 0DF6 9420 EF3C 111F CFC6 59B9 From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-30-primary Key imported successfully Importing GPG key 0x429476B4: Userid : "Fedora 29 (29) " Fingerprint: 5A03 B4DD 8254 ECA0 2FDA 1637 A20A A56B 4294 76B4 From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-29-primary Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.9-2.fc29.x86_64 1/1 Preparing : 1/1 Installing : libgcc-8.2.1-5.fc30.x86_64 1/146 Running scriptlet: libgcc-8.2.1-5.fc30.x86_64 1/146 Installing : publicsuffix-list-dafsa-20180723-1.fc29.noarch 2/146 Installing : pkgconf-m4-1.5.3-2.fc29.noarch 3/146 Installing : python-setuptools-wheel-40.4.3-1.fc30.noarch 4/146 Installing : python-pip-wheel-18.1-1.fc30.noarch 5/146 Installing : fedora-gpg-keys-30-0.2.noarch 6/146 Installing : fedora-release-common-30-0.14.noarch 7/146 Installing : fedora-release-30-0.14.noarch 8/146 Installing : fedora-repos-rawhide-30-0.2.noarch 9/146 Installing : fedora-repos-30-0.2.noarch 10/146 Installing : setup-2.12.3-1.fc30.noarch 11/146 Running scriptlet: setup-2.12.3-1.fc30.noarch 11/146 warning: /etc/hosts created as /etc/hosts.rpmnew Installing : filesystem-3.9-2.fc29.x86_64 12/146 Installing : basesystem-11-6.fc29.noarch 13/146 Installing : tzdata-2018g-1.fc30.noarch 14/146 Installing : 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libpwquality-1.4.0-11.fc30.x86_64 110/146 Installing : guile-5:2.0.14-12.fc29.x86_64 111/146 Installing : python3-libs-3.7.1-2.fc30.x86_64 112/146 Installing : systemd-libs-239-9.git9f3aed1.fc30.x86_64 113/146 Running scriptlet: systemd-libs-239-9.git9f3aed1.fc30.x86_64 113/146 Installing : glib2-2.58.1-2.fc30.x86_64 114/146 Installing : libbabeltrace-1.5.6-1.fc29.x86_64 115/146 Running scriptlet: libbabeltrace-1.5.6-1.fc29.x86_64 115/146 Installing : libfdisk-2.33-0.1.fc30.x86_64 116/146 Installing : libssh-0.8.5-1.fc30.x86_64 117/146 Installing : cyrus-sasl-lib-2.1.27-0.4rc7.fc30.x86_64 118/146 Running scriptlet: cyrus-sasl-lib-2.1.27-0.4rc7.fc30.x86_64 118/146 Installing : openldap-2.4.46-10.fc30.x86_64 119/146 Installing : libcurl-7.62.0-1.fc30.x86_64 120/146 Installing : curl-7.62.0-1.fc30.x86_64 121/146 Installing : shadow-utils-2:4.6-5.fc30.x86_64 122/146 Running scriptlet: libutempter-1.1.6-15.fc29.x86_64 123/146 Installing : libutempter-1.1.6-15.fc29.x86_64 123/146 Installing : binutils-2.31.1-16.fc30.x86_64 124/146 Running scriptlet: binutils-2.31.1-16.fc30.x86_64 124/146 Installing : libarchive-3.3.3-1.fc30.x86_64 125/146 Installing : rpm-libs-4.14.2.1-3.fc30.x86_64 126/146 Installing : rpm-4.14.2.1-3.fc30.x86_64 127/146 Installing : efi-srpm-macros-4-1.fc30.noarch 128/146 Installing : gdb-headless-8.2.50.20181114-9.fc30.x86_64 129/146 Installing : rpm-build-libs-4.14.2.1-3.fc30.x86_64 130/146 Installing : rust-srpm-macros-6-1.fc30.noarch 131/146 Installing : qt5-srpm-macros-5.11.2-1.fc30.noarch 132/146 Installing : python-srpm-macros-3-39.fc30.noarch 133/146 Installing : perl-srpm-macros-1-28.fc29.noarch 134/146 Installing : openblas-srpm-macros-2-4.fc29.noarch 135/146 Installing : ocaml-srpm-macros-5-4.fc29.noarch 136/146 Installing : nim-srpm-macros-1-3.fc29.noarch 137/146 Installing : go-srpm-macros-2-18.fc29.noarch 138/146 Installing : gnat-srpm-macros-4-4.fc30.noarch 139/146 Installing : ghc-srpm-macros-1.4.2-8.fc29.noarch 140/146 Installing : fpc-srpm-macros-1.1-5.fc29.noarch 141/146 Installing : redhat-rpm-config-125-1.fc30.noarch 142/146 Installing : rpm-build-4.14.2.1-3.fc30.x86_64 143/146 Installing : util-linux-2.33-0.1.fc30.x86_64 144/146 Running scriptlet: util-linux-2.33-0.1.fc30.x86_64 144/146 Installing : make-1:4.2.1-10.fc29.x86_64 145/146 Running scriptlet: make-1:4.2.1-10.fc29.x86_64 145/146 Installing : which-2.21-11.fc29.x86_64 146/146 Running scriptlet: filesystem-3.9-2.fc29.x86_64 146/146 Running scriptlet: glibc-all-langpacks-2.28.9000-19.fc30.x86_64 146/146 Running scriptlet: glibc-common-2.28.9000-19.fc30.x86_64 146/146 Running scriptlet: info-6.5-11.fc30.x86_64 146/146 Running scriptlet: glib2-2.58.1-2.fc30.x86_64 146/146 Verifying : shadow-utils-2:4.6-5.fc30.x86_64 1/146 Verifying : diffutils-3.6-5.fc29.x86_64 2/146 Verifying : gzip-1.9-7.fc29.x86_64 3/146 Verifying : make-1:4.2.1-10.fc29.x86_64 4/146 Verifying : bash-4.4.23-5.fc30.x86_64 5/146 Verifying : redhat-rpm-config-125-1.fc30.noarch 6/146 Verifying : findutils-1:4.6.0-21.fc30.x86_64 7/146 Verifying : fedora-release-30-0.14.noarch 8/146 Verifying : sed-4.5-2.fc29.x86_64 9/146 Verifying : rpm-build-4.14.2.1-3.fc30.x86_64 10/146 Verifying : grep-3.1-8.fc29.x86_64 11/146 Verifying : which-2.21-11.fc29.x86_64 12/146 Verifying : patch-2.7.6-7.fc30.x86_64 13/146 Verifying : tar-2:1.30-6.fc29.x86_64 14/146 Verifying : info-6.5-11.fc30.x86_64 15/146 Verifying : unzip-6.0-42.fc30.x86_64 16/146 Verifying : cpio-2.12-9.fc29.x86_64 17/146 Verifying : coreutils-8.30-8.fc30.x86_64 18/146 Verifying : xz-5.2.4-4.fc30.x86_64 19/146 Verifying : bzip2-1.0.6-28.fc29.x86_64 20/146 Verifying : gawk-4.2.1-3.fc29.x86_64 21/146 Verifying : util-linux-2.33-0.1.fc30.x86_64 22/146 Verifying : audit-libs-3.0-0.4.20180831git0047a6c.fc30.x86_6 23/146 Verifying : glibc-2.28.9000-19.fc30.x86_64 24/146 Verifying : libacl-2.2.53-2.fc29.x86_64 25/146 Verifying : libattr-2.4.48-4.fc30.x86_64 26/146 Verifying : libselinux-2.8-5.fc30.x86_64 27/146 Verifying : libsemanage-2.8-6.fc30.x86_64 28/146 Verifying : libxcrypt-4.4.0-1.fc30.x86_64 29/146 Verifying : setup-2.12.3-1.fc30.noarch 30/146 Verifying : guile-5:2.0.14-12.fc29.x86_64 31/146 Verifying : filesystem-3.9-2.fc29.x86_64 32/146 Verifying : ncurses-libs-6.1-8.20180923.fc30.x86_64 33/146 Verifying : dwz-0.12-9.fc29.x86_64 34/146 Verifying : efi-srpm-macros-4-1.fc30.noarch 35/146 Verifying : file-5.34-6.fc30.x86_64 36/146 Verifying : fpc-srpm-macros-1.1-5.fc29.noarch 37/146 Verifying : ghc-srpm-macros-1.4.2-8.fc29.noarch 38/146 Verifying : gnat-srpm-macros-4-4.fc30.noarch 39/146 Verifying : go-srpm-macros-2-18.fc29.noarch 40/146 Verifying : nim-srpm-macros-1-3.fc29.noarch 41/146 Verifying : ocaml-srpm-macros-5-4.fc29.noarch 42/146 Verifying : openblas-srpm-macros-2-4.fc29.noarch 43/146 Verifying : perl-srpm-macros-1-28.fc29.noarch 44/146 Verifying : python-srpm-macros-3-39.fc30.noarch 45/146 Verifying : qt5-srpm-macros-5.11.2-1.fc30.noarch 46/146 Verifying : rpm-4.14.2.1-3.fc30.x86_64 47/146 Verifying : rust-srpm-macros-6-1.fc30.noarch 48/146 Verifying : zip-3.0-23.fc29.x86_64 49/146 Verifying : fedora-release-common-30-0.14.noarch 50/146 Verifying : binutils-2.31.1-16.fc30.x86_64 51/146 Verifying : elfutils-0.175-1.fc30.x86_64 52/146 Verifying : elfutils-libelf-0.175-1.fc30.x86_64 53/146 Verifying : elfutils-libs-0.175-1.fc30.x86_64 54/146 Verifying : gdb-headless-8.2.50.20181114-9.fc30.x86_64 55/146 Verifying : popt-1.16-16.fc30.x86_64 56/146 Verifying : rpm-build-libs-4.14.2.1-3.fc30.x86_64 57/146 Verifying : rpm-libs-4.14.2.1-3.fc30.x86_64 58/146 Verifying : zstd-1.3.6-1.fc30.x86_64 59/146 Verifying : pcre-8.42-5.fc30.x86_64 60/146 Verifying : zlib-1.2.11-14.fc30.x86_64 61/146 Verifying : bzip2-libs-1.0.6-28.fc29.x86_64 62/146 Verifying : coreutils-common-8.30-8.fc30.x86_64 63/146 Verifying : gmp-1:6.1.2-8.fc29.x86_64 64/146 Verifying : libcap-2.25-12.fc29.x86_64 65/146 Verifying : ncurses-6.1-8.20180923.fc30.x86_64 66/146 Verifying : openssl-libs-1:1.1.1-7.fc30.x86_64 67/146 Verifying : xz-libs-5.2.4-4.fc30.x86_64 68/146 Verifying : libsigsegv-2.11-6.fc29.x86_64 69/146 Verifying : mpfr-3.1.6-3.fc30.x86_64 70/146 Verifying : readline-7.0-12.fc29.x86_64 71/146 Verifying : libblkid-2.33-0.1.fc30.x86_64 72/146 Verifying : libcap-ng-0.7.9-5.fc30.x86_64 73/146 Verifying : libfdisk-2.33-0.1.fc30.x86_64 74/146 Verifying : libmount-2.33-0.1.fc30.x86_64 75/146 Verifying : libsmartcols-2.33-0.1.fc30.x86_64 76/146 Verifying : libutempter-1.1.6-15.fc29.x86_64 77/146 Verifying : libuuid-2.33-0.1.fc30.x86_64 78/146 Verifying : pam-1.3.1-9.fc30.x86_64 79/146 Verifying : systemd-libs-239-9.git9f3aed1.fc30.x86_64 80/146 Verifying : basesystem-11-6.fc29.noarch 81/146 Verifying : glibc-common-2.28.9000-19.fc30.x86_64 82/146 Verifying : libsepol-2.8-3.fc30.x86_64 83/146 Verifying : pcre2-10.32-4.fc30.x86_64 84/146 Verifying : gc-7.6.4-4.fc29.x86_64 85/146 Verifying : libffi-3.1-18.fc29.x86_64 86/146 Verifying : libtool-ltdl-2.4.6-27.fc30.x86_64 87/146 Verifying : libunistring-0.9.10-4.fc29.x86_64 88/146 Verifying : ncurses-base-6.1-8.20180923.fc30.noarch 89/146 Verifying : file-libs-5.34-6.fc30.x86_64 90/146 Verifying : libarchive-3.3.3-1.fc30.x86_64 91/146 Verifying : libdb-utils-5.3.28-34.fc30.x86_64 92/146 Verifying : fedora-repos-30-0.2.noarch 93/146 Verifying : chkconfig-1.11-2.fc30.x86_64 94/146 Verifying : libgcc-8.2.1-5.fc30.x86_64 95/146 Verifying : libstdc++-8.2.1-5.fc30.x86_64 96/146 Verifying : elfutils-default-yama-scope-0.175-1.fc30.noarch 97/146 Verifying : expat-2.2.6-1.fc30.x86_64 98/146 Verifying : libbabeltrace-1.5.6-1.fc29.x86_64 99/146 Verifying : libipt-2.0-1.fc30.x86_64 100/146 Verifying : python3-libs-3.7.1-2.fc30.x86_64 101/146 Verifying : libdb-5.3.28-34.fc30.x86_64 102/146 Verifying : libzstd-1.3.6-1.fc30.x86_64 103/146 Verifying : lua-libs-5.3.5-2.fc29.x86_64 104/146 Verifying : ca-certificates-2018.2.26-2.fc30.noarch 105/146 Verifying : crypto-policies-20181122-1.git70769d9.fc30.noarc 106/146 Verifying : cracklib-2.9.6-17.fc30.x86_64 107/146 Verifying : libnsl2-1.2.0-3.20180605git4a062cf.fc30.x86_64 108/146 Verifying : libtirpc-1.1.4-2.rc2.fc30.x86_64 109/146 Verifying : libgcrypt-1.8.4-1.fc30.x86_64 110/146 Verifying : lz4-libs-1.8.2-2.fc29.x86_64 111/146 Verifying : tzdata-2018g-1.fc30.noarch 112/146 Verifying : libatomic_ops-7.6.6-1.fc29.x86_64 113/146 Verifying : libxml2-2.9.8-4.fc29.x86_64 114/146 Verifying : fedora-gpg-keys-30-0.2.noarch 115/146 Verifying : fedora-repos-rawhide-30-0.2.noarch 116/146 Verifying : glib2-2.58.1-2.fc30.x86_64 117/146 Verifying : gdbm-libs-1:1.18-1.fc30.x86_64 118/146 Verifying : python-pip-wheel-18.1-1.fc30.noarch 119/146 Verifying : python-setuptools-wheel-40.4.3-1.fc30.noarch 120/146 Verifying : sqlite-libs-3.25.2-1.fc30.x86_64 121/146 Verifying : krb5-libs-1.17-1.beta1.1.fc30.x86_64 122/146 Verifying : libcom_err-1.44.4-1.fc30.x86_64 123/146 Verifying : libgpg-error-1.31-2.fc29.x86_64 124/146 Verifying : keyutils-libs-1.6-1.fc30.x86_64 125/146 Verifying : libverto-0.3.0-6.fc29.x86_64 126/146 Verifying : pkgconf-pkg-config-1.5.3-2.fc29.x86_64 127/146 Verifying : pkgconf-1.5.3-2.fc29.x86_64 128/146 Verifying : pkgconf-m4-1.5.3-2.fc29.noarch 129/146 Verifying : libpkgconf-1.5.3-2.fc29.x86_64 130/146 Verifying : libpwquality-1.4.0-11.fc30.x86_64 131/146 Verifying : p11-kit-0.23.14-1.fc30.x86_64 132/146 Verifying : p11-kit-trust-0.23.14-1.fc30.x86_64 133/146 Verifying : libtasn1-4.13-6.fc30.x86_64 134/146 Verifying : curl-7.62.0-1.fc30.x86_64 135/146 Verifying : libmetalink-0.1.3-7.fc29.x86_64 136/146 Verifying : glibc-all-langpacks-2.28.9000-19.fc30.x86_64 137/146 Verifying : libcurl-7.62.0-1.fc30.x86_64 138/146 Verifying : brotli-1.0.5-1.fc29.x86_64 139/146 Verifying : libidn2-2.0.5-2.fc29.x86_64 140/146 Verifying : libnghttp2-1.35.0-1.fc30.x86_64 141/146 Verifying : libpsl-0.20.2-5.fc29.x86_64 142/146 Verifying : libssh-0.8.5-1.fc30.x86_64 143/146 Verifying : openldap-2.4.46-10.fc30.x86_64 144/146 Verifying : publicsuffix-list-dafsa-20180723-1.fc29.noarch 145/146 Verifying : cyrus-sasl-lib-2.1.27-0.4rc7.fc30.x86_64 146/146 Installed: bash.x86_64 4.4.23-5.fc30 bzip2.x86_64 1.0.6-28.fc29 coreutils.x86_64 8.30-8.fc30 cpio.x86_64 2.12-9.fc29 diffutils.x86_64 3.6-5.fc29 fedora-release.noarch 30-0.14 findutils.x86_64 1:4.6.0-21.fc30 gawk.x86_64 4.2.1-3.fc29 grep.x86_64 3.1-8.fc29 gzip.x86_64 1.9-7.fc29 info.x86_64 6.5-11.fc30 make.x86_64 1:4.2.1-10.fc29 patch.x86_64 2.7.6-7.fc30 redhat-rpm-config.noarch 125-1.fc30 rpm-build.x86_64 4.14.2.1-3.fc30 sed.x86_64 4.5-2.fc29 shadow-utils.x86_64 2:4.6-5.fc30 tar.x86_64 2:1.30-6.fc29 unzip.x86_64 6.0-42.fc30 util-linux.x86_64 2.33-0.1.fc30 which.x86_64 2.21-11.fc29 xz.x86_64 5.2.4-4.fc30 audit-libs.x86_64 3.0-0.4.20180831git0047a6c.fc30 basesystem.noarch 11-6.fc29 binutils.x86_64 2.31.1-16.fc30 brotli.x86_64 1.0.5-1.fc29 bzip2-libs.x86_64 1.0.6-28.fc29 ca-certificates.noarch 2018.2.26-2.fc30 chkconfig.x86_64 1.11-2.fc30 coreutils-common.x86_64 8.30-8.fc30 cracklib.x86_64 2.9.6-17.fc30 crypto-policies.noarch 20181122-1.git70769d9.fc30 curl.x86_64 7.62.0-1.fc30 cyrus-sasl-lib.x86_64 2.1.27-0.4rc7.fc30 dwz.x86_64 0.12-9.fc29 efi-srpm-macros.noarch 4-1.fc30 elfutils.x86_64 0.175-1.fc30 elfutils-default-yama-scope.noarch 0.175-1.fc30 elfutils-libelf.x86_64 0.175-1.fc30 elfutils-libs.x86_64 0.175-1.fc30 expat.x86_64 2.2.6-1.fc30 fedora-gpg-keys.noarch 30-0.2 fedora-release-common.noarch 30-0.14 fedora-repos.noarch 30-0.2 fedora-repos-rawhide.noarch 30-0.2 file.x86_64 5.34-6.fc30 file-libs.x86_64 5.34-6.fc30 filesystem.x86_64 3.9-2.fc29 fpc-srpm-macros.noarch 1.1-5.fc29 gc.x86_64 7.6.4-4.fc29 gdb-headless.x86_64 8.2.50.20181114-9.fc30 gdbm-libs.x86_64 1:1.18-1.fc30 ghc-srpm-macros.noarch 1.4.2-8.fc29 glib2.x86_64 2.58.1-2.fc30 glibc.x86_64 2.28.9000-19.fc30 glibc-all-langpacks.x86_64 2.28.9000-19.fc30 glibc-common.x86_64 2.28.9000-19.fc30 gmp.x86_64 1:6.1.2-8.fc29 gnat-srpm-macros.noarch 4-4.fc30 go-srpm-macros.noarch 2-18.fc29 guile.x86_64 5:2.0.14-12.fc29 keyutils-libs.x86_64 1.6-1.fc30 krb5-libs.x86_64 1.17-1.beta1.1.fc30 libacl.x86_64 2.2.53-2.fc29 libarchive.x86_64 3.3.3-1.fc30 libatomic_ops.x86_64 7.6.6-1.fc29 libattr.x86_64 2.4.48-4.fc30 libbabeltrace.x86_64 1.5.6-1.fc29 libblkid.x86_64 2.33-0.1.fc30 libcap.x86_64 2.25-12.fc29 libcap-ng.x86_64 0.7.9-5.fc30 libcom_err.x86_64 1.44.4-1.fc30 libcurl.x86_64 7.62.0-1.fc30 libdb.x86_64 5.3.28-34.fc30 libdb-utils.x86_64 5.3.28-34.fc30 libfdisk.x86_64 2.33-0.1.fc30 libffi.x86_64 3.1-18.fc29 libgcc.x86_64 8.2.1-5.fc30 libgcrypt.x86_64 1.8.4-1.fc30 libgpg-error.x86_64 1.31-2.fc29 libidn2.x86_64 2.0.5-2.fc29 libipt.x86_64 2.0-1.fc30 libmetalink.x86_64 0.1.3-7.fc29 libmount.x86_64 2.33-0.1.fc30 libnghttp2.x86_64 1.35.0-1.fc30 libnsl2.x86_64 1.2.0-3.20180605git4a062cf.fc30 libpkgconf.x86_64 1.5.3-2.fc29 libpsl.x86_64 0.20.2-5.fc29 libpwquality.x86_64 1.4.0-11.fc30 libselinux.x86_64 2.8-5.fc30 libsemanage.x86_64 2.8-6.fc30 libsepol.x86_64 2.8-3.fc30 libsigsegv.x86_64 2.11-6.fc29 libsmartcols.x86_64 2.33-0.1.fc30 libssh.x86_64 0.8.5-1.fc30 libstdc++.x86_64 8.2.1-5.fc30 libtasn1.x86_64 4.13-6.fc30 libtirpc.x86_64 1.1.4-2.rc2.fc30 libtool-ltdl.x86_64 2.4.6-27.fc30 libunistring.x86_64 0.9.10-4.fc29 libutempter.x86_64 1.1.6-15.fc29 libuuid.x86_64 2.33-0.1.fc30 libverto.x86_64 0.3.0-6.fc29 libxcrypt.x86_64 4.4.0-1.fc30 libxml2.x86_64 2.9.8-4.fc29 libzstd.x86_64 1.3.6-1.fc30 lua-libs.x86_64 5.3.5-2.fc29 lz4-libs.x86_64 1.8.2-2.fc29 mpfr.x86_64 3.1.6-3.fc30 ncurses.x86_64 6.1-8.20180923.fc30 ncurses-base.noarch 6.1-8.20180923.fc30 ncurses-libs.x86_64 6.1-8.20180923.fc30 nim-srpm-macros.noarch 1-3.fc29 ocaml-srpm-macros.noarch 5-4.fc29 openblas-srpm-macros.noarch 2-4.fc29 openldap.x86_64 2.4.46-10.fc30 openssl-libs.x86_64 1:1.1.1-7.fc30 p11-kit.x86_64 0.23.14-1.fc30 p11-kit-trust.x86_64 0.23.14-1.fc30 pam.x86_64 1.3.1-9.fc30 pcre.x86_64 8.42-5.fc30 pcre2.x86_64 10.32-4.fc30 perl-srpm-macros.noarch 1-28.fc29 pkgconf.x86_64 1.5.3-2.fc29 pkgconf-m4.noarch 1.5.3-2.fc29 pkgconf-pkg-config.x86_64 1.5.3-2.fc29 popt.x86_64 1.16-16.fc30 publicsuffix-list-dafsa.noarch 20180723-1.fc29 python-pip-wheel.noarch 18.1-1.fc30 python-setuptools-wheel.noarch 40.4.3-1.fc30 python-srpm-macros.noarch 3-39.fc30 python3-libs.x86_64 3.7.1-2.fc30 qt5-srpm-macros.noarch 5.11.2-1.fc30 readline.x86_64 7.0-12.fc29 rpm.x86_64 4.14.2.1-3.fc30 rpm-build-libs.x86_64 4.14.2.1-3.fc30 rpm-libs.x86_64 4.14.2.1-3.fc30 rust-srpm-macros.noarch 6-1.fc30 setup.noarch 2.12.3-1.fc30 sqlite-libs.x86_64 3.25.2-1.fc30 systemd-libs.x86_64 239-9.git9f3aed1.fc30 tzdata.noarch 2018g-1.fc30 xz-libs.x86_64 5.2.4-4.fc30 zip.x86_64 3.0-23.fc29 zlib.x86_64 1.2.11-14.fc30 zstd.x86_64 1.3.6-1.fc30 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: Start: buildsrpm Start: rpmbuild -bs sh: /usr/bin/perl: No such file or directory sh: /usr/bin/perl: No such file or directory sh: /usr/bin/perl: No such file or directory sh: /usr/bin/perl: No such file or directory sh: /usr/bin/perl: No such file or directory Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/bionetgen-2.4.0-3.fc30.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/829451-fedora-rawhide-x86_64-1543191731.335746/root/var/log/dnf.rpm.log /var/lib/mock/829451-fedora-rawhide-x86_64-1543191731.335746/root/var/log/dnf.librepo.log /var/lib/mock/829451-fedora-rawhide-x86_64-1543191731.335746/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/tmp/tmp_hquel5i/bionetgen.spec) Config(child) 1 minutes 16 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running: unbuffer /usr/bin/mock --rebuild /var/lib/copr-rpmbuild/results/bionetgen-2.4.0-3.fc30.src.rpm --configdir /var/lib/copr-rpmbuild/results/configs --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1543191808.340295 -r child WARNING: Could not find required logging config file: /var/lib/copr-rpmbuild/results/configs/logging.ini. Using default... INFO: mock.py version 1.4.13 starting (python version = 3.6.5)... Start: init plugins INFO: tmpfs initialized INFO: selinux disabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins Start: run INFO: Start(/var/lib/copr-rpmbuild/results/bionetgen-2.4.0-3.fc30.src.rpm) Config(829451-fedora-rawhide-x86_64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/829451-fedora-rawhide-x86_64-1543191808.340295/root. INFO: calling preinit hooks INFO: enabled root cache Start: unpacking root cache Finish: unpacking root cache INFO: enabled HW Info plugin Mock Version: 1.4.13 INFO: Mock Version: 1.4.13 Start: dnf update 'Copr repository' 792 kB/s | 56 kB 00:00 fedora 46 MB/s | 63 MB 00:01 Last metadata expiration check: 0:00:00 ago on Mon 26 Nov 2018 12:23:34 AM UTC. Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for bionetgen-2.4.0-3.fc30.src.rpm Start: build setup for bionetgen-2.4.0-3.fc30.src.rpm sh: /usr/bin/perl: No such file or directory sh: /usr/bin/perl: No such file or directory sh: /usr/bin/perl: No such file or directory sh: /usr/bin/perl: No such file or directory sh: /usr/bin/perl: No such file or directory Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/bionetgen-2.4.0-3.fc30.src.rpm Last metadata expiration check: 0:00:00 ago on Mon 26 Nov 2018 12:24:05 AM UTC. Dependencies resolved. ================================================================================ Package Arch Version Repository Size ================================================================================ Installing: autoconf noarch 2.69-28.fc29 fedora 698 k automake noarch 1.16.1-7.fc30 fedora 695 k gcc x86_64 8.2.1-5.fc30 fedora 23 M gcc-c++ x86_64 8.2.1-5.fc30 fedora 12 M libtool x86_64 2.4.6-27.fc30 fedora 687 k muParser-devel x86_64 2.2.6-1.fc30 fedora 28 k openmpi-devel x86_64 4.0.0-1.fc30 copr_base 1.2 M perl-generators noarch 1.10-10.fc29 fedora 15 k sundials-devel x86_64 3.2.1-1.fc30 fedora 157 k Installing dependencies: Lmod x86_64 7.8.9-1.fc30 fedora 218 k SuperLUMT-common noarch 3.1.0-18.fc30 fedora 648 k SuperLUMT64-double x86_64 3.1.0-18.fc30 fedora 78 k acl x86_64 2.2.53-2.fc29 fedora 71 k annobin x86_64 8.61-1.fc30 fedora 180 k cpp x86_64 8.2.1-5.fc30 fedora 10 M cryptsetup-libs x86_64 2.0.5-1.fc30 fedora 299 k dbus x86_64 1:1.12.10-9.fc30 fedora 11 k dbus-broker x86_64 16-4.fc30 fedora 145 k dbus-common noarch 1:1.12.10-9.fc30 fedora 17 k device-mapper x86_64 1.02.152-1.fc30 fedora 151 k device-mapper-libs x86_64 1.02.152-1.fc30 fedora 181 k dracut x86_64 049-11.git20181024.fc30 fedora 318 k emacs-filesystem noarch 1:26.1-7.fc30 fedora 10 k fipscheck x86_64 1.5.0-5.fc29 fedora 25 k fipscheck-lib x86_64 1.5.0-5.fc29 fedora 13 k gcc-gfortran x86_64 8.2.1-5.fc30 fedora 11 M glibc-devel x86_64 2.28.9000-19.fc30 fedora 1.0 M glibc-headers x86_64 2.28.9000-19.fc30 fedora 466 k gnutls x86_64 3.6.4-5.fc30 fedora 849 k groff-base x86_64 1.22.3-17.fc29 fedora 1.0 M hwloc-libs x86_64 1.11.9-2.fc29 fedora 1.6 M infinipath-psm x86_64 3.3-22_g4abbc60_open.6.fc29.1 fedora 196 k iptables-libs x86_64 1.8.0-3.fc29 fedora 53 k isl x86_64 0.16.1-7.fc29 fedora 841 k json-c x86_64 0.13.1-3.fc29 fedora 37 k kernel-headers x86_64 4.20.0-0.rc3.git1.1.fc30 fedora 1.2 M kmod x86_64 25-4.fc30 fedora 109 k kmod-libs x86_64 25-4.fc30 fedora 57 k libargon2 x86_64 20161029-6.fc29 fedora 28 k libedit x86_64 3.1-24.20170329cvs.fc29 fedora 96 k libevent x86_64 2.1.8-4.fc30 fedora 231 k libfabric x86_64 1.6.2-1.fc30 fedora 511 k libgfortran x86_64 8.2.1-5.fc30 fedora 647 k libgomp x86_64 8.2.1-5.fc30 fedora 205 k libibumad x86_64 20.1-1.fc30 fedora 23 k libibverbs x86_64 20.1-1.fc30 fedora 228 k libkcapi x86_64 1.1.3-1.fc30 fedora 43 k libkcapi-hmaccalc x86_64 1.1.3-1.fc30 fedora 26 k libmpc x86_64 1.1.0-2.fc29 fedora 58 k libnl3 x86_64 3.4.0-6.fc29 fedora 304 k libpcap x86_64 14:1.9.0-2.fc29 fedora 149 k libpsm2 x86_64 11.2.23-1.fc30 fedora 191 k libquadmath x86_64 8.2.1-5.fc30 fedora 186 k libquadmath-devel x86_64 8.2.1-5.fc30 fedora 42 k librdmacm x86_64 20.1-1.fc30 fedora 61 k libseccomp x86_64 2.3.3-4.fc30 fedora 58 k libstdc++-devel x86_64 8.2.1-5.fc30 fedora 2.1 M libxcrypt-devel x86_64 4.4.0-1.fc30 fedora 31 k lua x86_64 5.3.5-2.fc29 fedora 185 k lua-filesystem x86_64 1.6.3-9.fc29 fedora 32 k lua-json noarch 1.3.2-10.fc29 fedora 26 k lua-lpeg x86_64 1.0.1-6.fc29 fedora 64 k lua-posix x86_64 33.3.1-11.fc29 fedora 173 k lua-term x86_64 0.07-7.fc29 fedora 15 k m4 x86_64 1.4.18-9.fc29 fedora 214 k muParser x86_64 2.2.6-1.fc30 fedora 122 k munge x86_64 0.5.13-2.fc29 fedora 105 k munge-libs x86_64 0.5.13-2.fc29 fedora 39 k nettle x86_64 3.4-7.fc30 fedora 289 k numactl-libs x86_64 2.0.12-1.fc29 fedora 27 k openblas x86_64 0.3.3-2.fc30 fedora 27 k openblas-serial x86_64 0.3.3-2.fc30 fedora 4.5 M openmpi x86_64 4.0.0-1.fc30 copr_base 2.6 M opensm-libs x86_64 3.3.21-1.fc30 fedora 65 k openssh x86_64 7.9p1-2.fc30 fedora 394 k openssh-clients x86_64 7.9p1-2.fc30 fedora 539 k perl-Carp noarch 1.50-417.fc29 fedora 29 k perl-Data-Dumper x86_64 2.173-1.fc30 fedora 54 k perl-Encode x86_64 4:2.98-6.fc29 fedora 1.5 M perl-Errno x86_64 1.29-425.fc30 fedora 24 k perl-Exporter noarch 5.73-418.fc29 fedora 31 k perl-Fedora-VSP noarch 0.001-12.fc29 fedora 23 k perl-File-Path noarch 2.16-1.fc30 fedora 36 k perl-File-Temp noarch 1:0.230.800-2.fc29 fedora 60 k perl-Getopt-Long noarch 1:2.50-417.fc29 fedora 61 k perl-HTTP-Tiny noarch 0.076-1.fc29 fedora 55 k perl-IO x86_64 1.39-425.fc30 fedora 90 k perl-MIME-Base64 x86_64 3.15-417.fc29 fedora 30 k perl-PathTools x86_64 3.75-1.fc30 fedora 85 k perl-Pod-Escapes noarch 1:1.07-417.fc29 fedora 19 k perl-Pod-Perldoc noarch 3.28.01-418.fc29 fedora 83 k perl-Pod-Simple noarch 1:3.35-417.fc29 fedora 211 k perl-Pod-Usage noarch 4:1.69-417.fc29 fedora 32 k perl-Scalar-List-Utils x86_64 3:1.50-417.fc29 fedora 64 k perl-Socket x86_64 4:2.027-417.fc29 fedora 54 k perl-Storable x86_64 1:3.11-5.fc30 fedora 94 k perl-Term-ANSIColor noarch 4.06-418.fc29 fedora 44 k perl-Term-Cap noarch 1.17-417.fc29 fedora 22 k perl-Text-ParseWords noarch 3.30-417.fc29 fedora 16 k perl-Text-Tabs+Wrap noarch 2013.0523-417.fc29 fedora 23 k perl-Thread-Queue noarch 3.13-1.fc29 fedora 21 k perl-Time-Local noarch 2:1.280-3.fc29 fedora 31 k perl-Unicode-Normalize x86_64 1.26-417.fc29 fedora 81 k perl-constant noarch 1.33-418.fc29 fedora 23 k perl-interpreter x86_64 4:5.28.0-425.fc30 fedora 6.4 M perl-libs x86_64 4:5.28.0-425.fc30 fedora 1.6 M perl-macros x86_64 4:5.28.0-425.fc30 fedora 20 k perl-parent noarch 1:0.237-2.fc29 fedora 14 k perl-podlators noarch 1:4.11-3.fc29 fedora 115 k perl-threads x86_64 1:2.22-417.fc29 fedora 57 k perl-threads-shared x86_64 1.58-417.fc29 fedora 43 k pmix x86_64 3.0.2-1.fc30 copr_base 591 k procps-ng x86_64 3.3.15-4.fc29 fedora 321 k qrencode-libs x86_64 3.4.4-6.fc29 fedora 55 k rdma-core x86_64 20.1-1.fc30 fedora 56 k rpm-mpi-hooks noarch 5-4.fc30 copr_base 11 k suitesparse x86_64 4.4.6-17.fc30 fedora 851 k sundials x86_64 3.2.1-1.fc30 fedora 387 k systemd x86_64 239-9.git9f3aed1.fc30 fedora 3.5 M systemd-pam x86_64 239-9.git9f3aed1.fc30 fedora 161 k systemd-rpm-macros noarch 239-9.git9f3aed1.fc30 fedora 20 k systemd-udev x86_64 239-9.git9f3aed1.fc30 fedora 1.2 M tbb x86_64 2019.2-1.fc30 fedora 147 k tcl x86_64 1:8.6.8-2.fc29 fedora 1.1 M torque-libs x86_64 4.2.10-19.fc30 fedora 126 k ucx x86_64 1.4.0-1.fc30 fedora 392 k Transaction Summary ================================================================================ Install 126 Packages Total download size: 103 M Installed size: 332 M Downloading Packages: (1/126): autoconf-2.69-28.fc29.noarch.rpm 23 MB/s | 698 kB 00:00 (2/126): automake-1.16.1-7.fc30.noarch.rpm 20 MB/s | 695 kB 00:00 (3/126): libtool-2.4.6-27.fc30.x86_64.rpm 18 MB/s | 687 kB 00:00 (4/126): perl-generators-1.10-10.fc29.noarch.rp 3.3 MB/s | 15 kB 00:00 (5/126): muParser-devel-2.2.6-1.fc30.x86_64.rpm 856 kB/s | 28 kB 00:00 (6/126): gcc-c++-8.2.1-5.fc30.x86_64.rpm 39 MB/s | 12 MB 00:00 (7/126): openmpi-devel-4.0.0-1.fc30.x86_64.rpm 4.0 MB/s | 1.2 MB 00:00 (8/126): emacs-filesystem-26.1-7.fc30.noarch.rp 3.5 MB/s | 10 kB 00:00 (9/126): m4-1.4.18-9.fc29.x86_64.rpm 11 MB/s | 214 kB 00:00 (10/126): perl-Carp-1.50-417.fc29.noarch.rpm 6.6 MB/s | 29 kB 00:00 (11/126): sundials-devel-3.2.1-1.fc30.x86_64.rp 2.4 MB/s | 157 kB 00:00 (12/126): perl-Data-Dumper-2.173-1.fc30.x86_64. 4.6 MB/s | 54 kB 00:00 (13/126): perl-Errno-1.29-425.fc30.x86_64.rpm 10 MB/s | 24 kB 00:00 (14/126): perl-Exporter-5.73-418.fc29.noarch.rp 11 MB/s | 31 kB 00:00 (15/126): perl-File-Path-2.16-1.fc30.noarch.rpm 14 MB/s | 36 kB 00:00 (16/126): perl-Getopt-Long-2.50-417.fc29.noarch 18 MB/s | 61 kB 00:00 (17/126): perl-IO-1.39-425.fc30.x86_64.rpm 22 MB/s | 90 kB 00:00 (18/126): perl-PathTools-3.75-1.fc30.x86_64.rpm 16 MB/s | 85 kB 00:00 (19/126): perl-Text-ParseWords-3.30-417.fc29.no 4.0 MB/s | 16 kB 00:00 (20/126): perl-constant-1.33-418.fc29.noarch.rp 10 MB/s | 23 kB 00:00 (21/126): perl-Thread-Queue-3.13-1.fc29.noarch. 6.8 MB/s | 21 kB 00:00 (22/126): perl-threads-2.22-417.fc29.x86_64.rpm 16 MB/s | 57 kB 00:00 (23/126): perl-Fedora-VSP-0.001-12.fc29.noarch. 6.4 MB/s | 23 kB 00:00 (24/126): perl-macros-5.28.0-425.fc30.x86_64.rp 6.5 MB/s | 20 kB 00:00 (25/126): gcc-8.2.1-5.fc30.x86_64.rpm 42 MB/s | 23 MB 00:00 (26/126): isl-0.16.1-7.fc29.x86_64.rpm 40 MB/s | 841 kB 00:00 (27/126): libgomp-8.2.1-5.fc30.x86_64.rpm 18 MB/s | 205 kB 00:00 (28/126): libmpc-1.1.0-2.fc29.x86_64.rpm 10 MB/s | 58 kB 00:00 (29/126): muParser-2.2.6-1.fc30.x86_64.rpm 2.3 MB/s | 122 kB 00:00 (30/126): cpp-8.2.1-5.fc30.x86_64.rpm 35 MB/s | 10 MB 00:00 (31/126): hwloc-libs-1.11.9-2.fc29.x86_64.rpm 53 MB/s | 1.6 MB 00:00 (32/126): libevent-2.1.8-4.fc30.x86_64.rpm 28 MB/s | 231 kB 00:00 (33/126): perl-interpreter-5.28.0-425.fc30.x86_ 16 MB/s | 6.4 MB 00:00 (34/126): perl-Scalar-List-Utils-1.50-417.fc29. 17 MB/s | 64 kB 00:00 (35/126): sundials-3.2.1-1.fc30.x86_64.rpm 5.2 MB/s | 387 kB 00:00 (36/126): openmpi-4.0.0-1.fc30.x86_64.rpm 15 MB/s | 2.6 MB 00:00 (37/126): perl-Pod-Usage-1.69-417.fc29.noarch.r 2.1 MB/s | 32 kB 00:00 (38/126): perl-Socket-2.027-417.fc29.x86_64.rpm 12 MB/s | 54 kB 00:00 (39/126): perl-Text-Tabs+Wrap-2013.0523-417.fc2 3.9 MB/s | 23 kB 00:00 (40/126): perl-parent-0.237-2.fc29.noarch.rpm 4.4 MB/s | 14 kB 00:00 (41/126): perl-Unicode-Normalize-1.26-417.fc29. 12 MB/s | 81 kB 00:00 (42/126): perl-threads-shared-1.58-417.fc29.x86 16 MB/s | 43 kB 00:00 (43/126): infinipath-psm-3.3-22_g4abbc60_open.6 35 MB/s | 196 kB 00:00 (44/126): perl-libs-5.28.0-425.fc30.x86_64.rpm 33 MB/s | 1.6 MB 00:00 (45/126): libfabric-1.6.2-1.fc30.x86_64.rpm 26 MB/s | 511 kB 00:00 (46/126): libgfortran-8.2.1-5.fc30.x86_64.rpm 27 MB/s | 647 kB 00:00 (47/126): libibverbs-20.1-1.fc30.x86_64.rpm 24 MB/s | 228 kB 00:00 (48/126): libpsm2-11.2.23-1.fc30.x86_64.rpm 15 MB/s | 191 kB 00:00 (49/126): libquadmath-8.2.1-5.fc30.x86_64.rpm 23 MB/s | 186 kB 00:00 (50/126): librdmacm-20.1-1.fc30.x86_64.rpm 9.5 MB/s | 61 kB 00:00 (51/126): opensm-libs-3.3.21-1.fc30.x86_64.rpm 10 MB/s | 65 kB 00:00 (52/126): torque-libs-4.2.10-19.fc30.x86_64.rpm 20 MB/s | 126 kB 00:00 (53/126): openssh-clients-7.9p1-2.fc30.x86_64.r 41 MB/s | 539 kB 00:00 (54/126): numactl-libs-2.0.12-1.fc29.x86_64.rpm 3.5 MB/s | 27 kB 00:00 (55/126): ucx-1.4.0-1.fc30.x86_64.rpm 24 MB/s | 392 kB 00:00 (56/126): SuperLUMT64-double-3.1.0-18.fc30.x86_ 2.4 MB/s | 78 kB 00:00 (57/126): suitesparse-4.4.6-17.fc30.x86_64.rpm 10 MB/s | 851 kB 00:00 (58/126): perl-Pod-Perldoc-3.28.01-418.fc29.noa 12 MB/s | 83 kB 00:00 (59/126): perl-podlators-4.11-3.fc29.noarch.rpm 22 MB/s | 115 kB 00:00 (60/126): systemd-udev-239-9.git9f3aed1.fc30.x8 26 MB/s | 1.2 MB 00:00 (61/126): openblas-serial-0.3.3-2.fc30.x86_64.r 23 MB/s | 4.5 MB 00:00 (62/126): libnl3-3.4.0-6.fc29.x86_64.rpm 9.9 MB/s | 304 kB 00:00 (63/126): rdma-core-20.1-1.fc30.x86_64.rpm 9.2 MB/s | 56 kB 00:00 (64/126): libibumad-20.1-1.fc30.x86_64.rpm 6.8 MB/s | 23 kB 00:00 (65/126): fipscheck-lib-1.5.0-5.fc29.x86_64.rpm 3.7 MB/s | 13 kB 00:00 (66/126): libedit-3.1-24.20170329cvs.fc29.x86_6 21 MB/s | 96 kB 00:00 (67/126): munge-0.5.13-2.fc29.x86_64.rpm 22 MB/s | 105 kB 00:00 (68/126): openssh-7.9p1-2.fc30.x86_64.rpm 35 MB/s | 394 kB 00:00 (69/126): munge-libs-0.5.13-2.fc29.x86_64.rpm 9.6 MB/s | 39 kB 00:00 (70/126): gcc-gfortran-8.2.1-5.fc30.x86_64.rpm 40 MB/s | 11 MB 00:00 (71/126): tbb-2019.2-1.fc30.x86_64.rpm 2.5 MB/s | 147 kB 00:00 (72/126): perl-File-Temp-0.230.800-2.fc29.noarc 14 MB/s | 60 kB 00:00 (73/126): SuperLUMT-common-3.1.0-18.fc30.noarch 9.2 MB/s | 648 kB 00:00 (74/126): perl-HTTP-Tiny-0.076-1.fc29.noarch.rp 7.8 MB/s | 55 kB 00:00 (75/126): perl-Pod-Simple-3.35-417.fc29.noarch. 36 MB/s | 211 kB 00:00 (76/126): perl-Term-ANSIColor-4.06-418.fc29.noa 8.2 MB/s | 44 kB 00:00 (77/126): perl-Term-Cap-1.17-417.fc29.noarch.rp 7.7 MB/s | 22 kB 00:00 (78/126): groff-base-1.22.3-17.fc29.x86_64.rpm 35 MB/s | 1.0 MB 00:00 (79/126): kmod-25-4.fc30.x86_64.rpm 14 MB/s | 109 kB 00:00 (80/126): kmod-libs-25-4.fc30.x86_64.rpm 16 MB/s | 57 kB 00:00 (81/126): cryptsetup-libs-2.0.5-1.fc30.x86_64.r 20 MB/s | 299 kB 00:00 (82/126): fipscheck-1.5.0-5.fc29.x86_64.rpm 6.2 MB/s | 25 kB 00:00 (83/126): dracut-049-11.git20181024.fc30.x86_64 30 MB/s | 318 kB 00:00 (84/126): perl-MIME-Base64-3.15-417.fc29.x86_64 7.9 MB/s | 30 kB 00:00 (85/126): perl-Time-Local-1.280-3.fc29.noarch.r 8.4 MB/s | 31 kB 00:00 (86/126): perl-Pod-Escapes-1.07-417.fc29.noarch 5.1 MB/s | 19 kB 00:00 (87/126): device-mapper-libs-1.02.152-1.fc30.x8 31 MB/s | 181 kB 00:00 (88/126): json-c-0.13.1-3.fc29.x86_64.rpm 5.8 MB/s | 37 kB 00:00 (89/126): libargon2-20161029-6.fc29.x86_64.rpm 8.9 MB/s | 28 kB 00:00 (90/126): acl-2.2.53-2.fc29.x86_64.rpm 15 MB/s | 71 kB 00:00 (91/126): iptables-libs-1.8.0-3.fc29.x86_64.rpm 8.4 MB/s | 53 kB 00:00 (92/126): libseccomp-2.3.3-4.fc30.x86_64.rpm 11 MB/s | 58 kB 00:00 (93/126): gnutls-3.6.4-5.fc30.x86_64.rpm 27 MB/s | 849 kB 00:00 (94/126): qrencode-libs-3.4.4-6.fc29.x86_64.rpm 3.1 MB/s | 55 kB 00:00 (95/126): systemd-pam-239-9.git9f3aed1.fc30.x86 29 MB/s | 161 kB 00:00 (96/126): systemd-rpm-macros-239-9.git9f3aed1.f 3.8 MB/s | 20 kB 00:00 (97/126): libkcapi-hmaccalc-1.1.3-1.fc30.x86_64 7.4 MB/s | 26 kB 00:00 (98/126): 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-------------------------------------------------------------------------------- Total 68 MB/s | 103 MB 00:01 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Preparing : 1/1 Installing : perl-Exporter-5.73-418.fc29.noarch 1/126 Installing : perl-libs-4:5.28.0-425.fc30.x86_64 2/126 Installing : perl-Carp-1.50-417.fc29.noarch 3/126 Installing : perl-Scalar-List-Utils-3:1.50-417.fc29.x86_64 4/126 Installing : perl-parent-1:0.237-2.fc29.noarch 5/126 Installing : libquadmath-8.2.1-5.fc30.x86_64 6/126 Running scriptlet: libquadmath-8.2.1-5.fc30.x86_64 6/126 Installing : libmpc-1.1.0-2.fc29.x86_64 7/126 Installing : libgfortran-8.2.1-5.fc30.x86_64 8/126 Running scriptlet: libgfortran-8.2.1-5.fc30.x86_64 8/126 Installing : perl-Text-ParseWords-3.30-417.fc29.noarch 9/126 Installing : fipscheck-1.5.0-5.fc29.x86_64 10/126 Installing : fipscheck-lib-1.5.0-5.fc29.x86_64 11/126 Running scriptlet: fipscheck-lib-1.5.0-5.fc29.x86_64 11/126 Installing : kmod-libs-25-4.fc30.x86_64 12/126 Installing : kmod-25-4.fc30.x86_64 13/126 Installing : munge-libs-0.5.13-2.fc29.x86_64 14/126 Running scriptlet: munge-libs-0.5.13-2.fc29.x86_64 14/126 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perl-File-Path-2.16-1.fc30.noarch 16/126 Verifying : perl-Getopt-Long-1:2.50-417.fc29.noarch 17/126 Verifying : perl-IO-1.39-425.fc30.x86_64 18/126 Verifying : perl-PathTools-3.75-1.fc30.x86_64 19/126 Verifying : perl-Text-ParseWords-3.30-417.fc29.noarch 20/126 Verifying : perl-constant-1.33-418.fc29.noarch 21/126 Verifying : perl-interpreter-4:5.28.0-425.fc30.x86_64 22/126 Verifying : perl-Thread-Queue-3.13-1.fc29.noarch 23/126 Verifying : perl-threads-1:2.22-417.fc29.x86_64 24/126 Verifying : perl-Fedora-VSP-0.001-12.fc29.noarch 25/126 Verifying : perl-macros-4:5.28.0-425.fc30.x86_64 26/126 Verifying : cpp-8.2.1-5.fc30.x86_64 27/126 Verifying : isl-0.16.1-7.fc29.x86_64 28/126 Verifying : libgomp-8.2.1-5.fc30.x86_64 29/126 Verifying : libmpc-1.1.0-2.fc29.x86_64 30/126 Verifying : muParser-2.2.6-1.fc30.x86_64 31/126 Verifying : openmpi-4.0.0-1.fc30.x86_64 32/126 Verifying : hwloc-libs-1.11.9-2.fc29.x86_64 33/126 Verifying : libevent-2.1.8-4.fc30.x86_64 34/126 Verifying : sundials-3.2.1-1.fc30.x86_64 35/126 Verifying : perl-Scalar-List-Utils-3:1.50-417.fc29.x86_64 36/126 Verifying : perl-libs-4:5.28.0-425.fc30.x86_64 37/126 Verifying : perl-Pod-Usage-4:1.69-417.fc29.noarch 38/126 Verifying : perl-Socket-4:2.027-417.fc29.x86_64 39/126 Verifying : perl-Text-Tabs+Wrap-2013.0523-417.fc29.noarch 40/126 Verifying : perl-Unicode-Normalize-1.26-417.fc29.x86_64 41/126 Verifying : perl-parent-1:0.237-2.fc29.noarch 42/126 Verifying : perl-threads-shared-1.58-417.fc29.x86_64 43/126 Verifying : infinipath-psm-3.3-22_g4abbc60_open.6.fc29.1.x86 44/126 Verifying : libfabric-1.6.2-1.fc30.x86_64 45/126 Verifying : libgfortran-8.2.1-5.fc30.x86_64 46/126 Verifying : libibverbs-20.1-1.fc30.x86_64 47/126 Verifying : libpsm2-11.2.23-1.fc30.x86_64 48/126 Verifying : libquadmath-8.2.1-5.fc30.x86_64 49/126 Verifying : librdmacm-20.1-1.fc30.x86_64 50/126 Verifying : opensm-libs-3.3.21-1.fc30.x86_64 51/126 Verifying : openssh-clients-7.9p1-2.fc30.x86_64 52/126 Verifying : torque-libs-4.2.10-19.fc30.x86_64 53/126 Verifying : ucx-1.4.0-1.fc30.x86_64 54/126 Verifying : numactl-libs-2.0.12-1.fc29.x86_64 55/126 Verifying : SuperLUMT64-double-3.1.0-18.fc30.x86_64 56/126 Verifying : gcc-gfortran-8.2.1-5.fc30.x86_64 57/126 Verifying : openblas-serial-0.3.3-2.fc30.x86_64 58/126 Verifying : suitesparse-4.4.6-17.fc30.x86_64 59/126 Verifying : perl-Pod-Perldoc-3.28.01-418.fc29.noarch 60/126 Verifying : perl-podlators-1:4.11-3.fc29.noarch 61/126 Verifying : systemd-udev-239-9.git9f3aed1.fc30.x86_64 62/126 Verifying : libnl3-3.4.0-6.fc29.x86_64 63/126 Verifying : rdma-core-20.1-1.fc30.x86_64 64/126 Verifying : libibumad-20.1-1.fc30.x86_64 65/126 Verifying : fipscheck-lib-1.5.0-5.fc29.x86_64 66/126 Verifying : libedit-3.1-24.20170329cvs.fc29.x86_64 67/126 Verifying : openssh-7.9p1-2.fc30.x86_64 68/126 Verifying : munge-0.5.13-2.fc29.x86_64 69/126 Verifying : munge-libs-0.5.13-2.fc29.x86_64 70/126 Verifying : SuperLUMT-common-3.1.0-18.fc30.noarch 71/126 Verifying : tbb-2019.2-1.fc30.x86_64 72/126 Verifying : groff-base-1.22.3-17.fc29.x86_64 73/126 Verifying : perl-File-Temp-1:0.230.800-2.fc29.noarch 74/126 Verifying : perl-HTTP-Tiny-0.076-1.fc29.noarch 75/126 Verifying : perl-Pod-Simple-1:3.35-417.fc29.noarch 76/126 Verifying : perl-Term-ANSIColor-4.06-418.fc29.noarch 77/126 Verifying : perl-Term-Cap-1.17-417.fc29.noarch 78/126 Verifying : cryptsetup-libs-2.0.5-1.fc30.x86_64 79/126 Verifying : kmod-25-4.fc30.x86_64 80/126 Verifying : kmod-libs-25-4.fc30.x86_64 81/126 Verifying : systemd-239-9.git9f3aed1.fc30.x86_64 82/126 Verifying : dracut-049-11.git20181024.fc30.x86_64 83/126 Verifying : fipscheck-1.5.0-5.fc29.x86_64 84/126 Verifying : perl-MIME-Base64-3.15-417.fc29.x86_64 85/126 Verifying : perl-Time-Local-2:1.280-3.fc29.noarch 86/126 Verifying : perl-Pod-Escapes-1:1.07-417.fc29.noarch 87/126 Verifying : device-mapper-libs-1.02.152-1.fc30.x86_64 88/126 Verifying : json-c-0.13.1-3.fc29.x86_64 89/126 Verifying : libargon2-20161029-6.fc29.x86_64 90/126 Verifying : acl-2.2.53-2.fc29.x86_64 91/126 Verifying : gnutls-3.6.4-5.fc30.x86_64 92/126 Verifying : iptables-libs-1.8.0-3.fc29.x86_64 93/126 Verifying : libseccomp-2.3.3-4.fc30.x86_64 94/126 Verifying : qrencode-libs-3.4.4-6.fc29.x86_64 95/126 Verifying : systemd-pam-239-9.git9f3aed1.fc30.x86_64 96/126 Verifying : systemd-rpm-macros-239-9.git9f3aed1.fc30.noarch 97/126 Verifying : libkcapi-hmaccalc-1.1.3-1.fc30.x86_64 98/126 Verifying : device-mapper-1.02.152-1.fc30.x86_64 99/126 Verifying : nettle-3.4-7.fc30.x86_64 100/126 Verifying : libpcap-14:1.9.0-2.fc29.x86_64 101/126 Verifying : libkcapi-1.1.3-1.fc30.x86_64 102/126 Verifying : annobin-8.61-1.fc30.x86_64 103/126 Verifying : dbus-1:1.12.10-9.fc30.x86_64 104/126 Verifying : dbus-broker-16-4.fc30.x86_64 105/126 Verifying : dbus-common-1:1.12.10-9.fc30.noarch 106/126 Verifying : perl-Encode-4:2.98-6.fc29.x86_64 107/126 Verifying : perl-Storable-1:3.11-5.fc30.x86_64 108/126 Verifying : openblas-0.3.3-2.fc30.x86_64 109/126 Verifying : libquadmath-devel-8.2.1-5.fc30.x86_64 110/126 Verifying : libstdc++-devel-8.2.1-5.fc30.x86_64 111/126 Verifying : glibc-devel-2.28.9000-19.fc30.x86_64 112/126 Verifying : libxcrypt-devel-4.4.0-1.fc30.x86_64 113/126 Verifying : procps-ng-3.3.15-4.fc29.x86_64 114/126 Verifying : rpm-mpi-hooks-5-4.fc30.noarch 115/126 Verifying : pmix-3.0.2-1.fc30.x86_64 116/126 Verifying : glibc-headers-2.28.9000-19.fc30.x86_64 117/126 Verifying : kernel-headers-4.20.0-0.rc3.git1.1.fc30.x86_64 118/126 Verifying : Lmod-7.8.9-1.fc30.x86_64 119/126 Verifying : lua-filesystem-1.6.3-9.fc29.x86_64 120/126 Verifying : lua-json-1.3.2-10.fc29.noarch 121/126 Verifying : lua-posix-33.3.1-11.fc29.x86_64 122/126 Verifying : lua-term-0.07-7.fc29.x86_64 123/126 Verifying : lua-lpeg-1.0.1-6.fc29.x86_64 124/126 Verifying : lua-5.3.5-2.fc29.x86_64 125/126 Verifying : tcl-1:8.6.8-2.fc29.x86_64 126/126 Installed: autoconf.noarch 2.69-28.fc29 automake.noarch 1.16.1-7.fc30 gcc.x86_64 8.2.1-5.fc30 gcc-c++.x86_64 8.2.1-5.fc30 libtool.x86_64 2.4.6-27.fc30 muParser-devel.x86_64 2.2.6-1.fc30 openmpi-devel.x86_64 4.0.0-1.fc30 perl-generators.noarch 1.10-10.fc29 sundials-devel.x86_64 3.2.1-1.fc30 Lmod.x86_64 7.8.9-1.fc30 SuperLUMT-common.noarch 3.1.0-18.fc30 SuperLUMT64-double.x86_64 3.1.0-18.fc30 acl.x86_64 2.2.53-2.fc29 annobin.x86_64 8.61-1.fc30 cpp.x86_64 8.2.1-5.fc30 cryptsetup-libs.x86_64 2.0.5-1.fc30 dbus.x86_64 1:1.12.10-9.fc30 dbus-broker.x86_64 16-4.fc30 dbus-common.noarch 1:1.12.10-9.fc30 device-mapper.x86_64 1.02.152-1.fc30 device-mapper-libs.x86_64 1.02.152-1.fc30 dracut.x86_64 049-11.git20181024.fc30 emacs-filesystem.noarch 1:26.1-7.fc30 fipscheck.x86_64 1.5.0-5.fc29 fipscheck-lib.x86_64 1.5.0-5.fc29 gcc-gfortran.x86_64 8.2.1-5.fc30 glibc-devel.x86_64 2.28.9000-19.fc30 glibc-headers.x86_64 2.28.9000-19.fc30 gnutls.x86_64 3.6.4-5.fc30 groff-base.x86_64 1.22.3-17.fc29 hwloc-libs.x86_64 1.11.9-2.fc29 infinipath-psm.x86_64 3.3-22_g4abbc60_open.6.fc29.1 iptables-libs.x86_64 1.8.0-3.fc29 isl.x86_64 0.16.1-7.fc29 json-c.x86_64 0.13.1-3.fc29 kernel-headers.x86_64 4.20.0-0.rc3.git1.1.fc30 kmod.x86_64 25-4.fc30 kmod-libs.x86_64 25-4.fc30 libargon2.x86_64 20161029-6.fc29 libedit.x86_64 3.1-24.20170329cvs.fc29 libevent.x86_64 2.1.8-4.fc30 libfabric.x86_64 1.6.2-1.fc30 libgfortran.x86_64 8.2.1-5.fc30 libgomp.x86_64 8.2.1-5.fc30 libibumad.x86_64 20.1-1.fc30 libibverbs.x86_64 20.1-1.fc30 libkcapi.x86_64 1.1.3-1.fc30 libkcapi-hmaccalc.x86_64 1.1.3-1.fc30 libmpc.x86_64 1.1.0-2.fc29 libnl3.x86_64 3.4.0-6.fc29 libpcap.x86_64 14:1.9.0-2.fc29 libpsm2.x86_64 11.2.23-1.fc30 libquadmath.x86_64 8.2.1-5.fc30 libquadmath-devel.x86_64 8.2.1-5.fc30 librdmacm.x86_64 20.1-1.fc30 libseccomp.x86_64 2.3.3-4.fc30 libstdc++-devel.x86_64 8.2.1-5.fc30 libxcrypt-devel.x86_64 4.4.0-1.fc30 lua.x86_64 5.3.5-2.fc29 lua-filesystem.x86_64 1.6.3-9.fc29 lua-json.noarch 1.3.2-10.fc29 lua-lpeg.x86_64 1.0.1-6.fc29 lua-posix.x86_64 33.3.1-11.fc29 lua-term.x86_64 0.07-7.fc29 m4.x86_64 1.4.18-9.fc29 muParser.x86_64 2.2.6-1.fc30 munge.x86_64 0.5.13-2.fc29 munge-libs.x86_64 0.5.13-2.fc29 nettle.x86_64 3.4-7.fc30 numactl-libs.x86_64 2.0.12-1.fc29 openblas.x86_64 0.3.3-2.fc30 openblas-serial.x86_64 0.3.3-2.fc30 openmpi.x86_64 4.0.0-1.fc30 opensm-libs.x86_64 3.3.21-1.fc30 openssh.x86_64 7.9p1-2.fc30 openssh-clients.x86_64 7.9p1-2.fc30 perl-Carp.noarch 1.50-417.fc29 perl-Data-Dumper.x86_64 2.173-1.fc30 perl-Encode.x86_64 4:2.98-6.fc29 perl-Errno.x86_64 1.29-425.fc30 perl-Exporter.noarch 5.73-418.fc29 perl-Fedora-VSP.noarch 0.001-12.fc29 perl-File-Path.noarch 2.16-1.fc30 perl-File-Temp.noarch 1:0.230.800-2.fc29 perl-Getopt-Long.noarch 1:2.50-417.fc29 perl-HTTP-Tiny.noarch 0.076-1.fc29 perl-IO.x86_64 1.39-425.fc30 perl-MIME-Base64.x86_64 3.15-417.fc29 perl-PathTools.x86_64 3.75-1.fc30 perl-Pod-Escapes.noarch 1:1.07-417.fc29 perl-Pod-Perldoc.noarch 3.28.01-418.fc29 perl-Pod-Simple.noarch 1:3.35-417.fc29 perl-Pod-Usage.noarch 4:1.69-417.fc29 perl-Scalar-List-Utils.x86_64 3:1.50-417.fc29 perl-Socket.x86_64 4:2.027-417.fc29 perl-Storable.x86_64 1:3.11-5.fc30 perl-Term-ANSIColor.noarch 4.06-418.fc29 perl-Term-Cap.noarch 1.17-417.fc29 perl-Text-ParseWords.noarch 3.30-417.fc29 perl-Text-Tabs+Wrap.noarch 2013.0523-417.fc29 perl-Thread-Queue.noarch 3.13-1.fc29 perl-Time-Local.noarch 2:1.280-3.fc29 perl-Unicode-Normalize.x86_64 1.26-417.fc29 perl-constant.noarch 1.33-418.fc29 perl-interpreter.x86_64 4:5.28.0-425.fc30 perl-libs.x86_64 4:5.28.0-425.fc30 perl-macros.x86_64 4:5.28.0-425.fc30 perl-parent.noarch 1:0.237-2.fc29 perl-podlators.noarch 1:4.11-3.fc29 perl-threads.x86_64 1:2.22-417.fc29 perl-threads-shared.x86_64 1.58-417.fc29 pmix.x86_64 3.0.2-1.fc30 procps-ng.x86_64 3.3.15-4.fc29 qrencode-libs.x86_64 3.4.4-6.fc29 rdma-core.x86_64 20.1-1.fc30 rpm-mpi-hooks.noarch 5-4.fc30 suitesparse.x86_64 4.4.6-17.fc30 sundials.x86_64 3.2.1-1.fc30 systemd.x86_64 239-9.git9f3aed1.fc30 systemd-pam.x86_64 239-9.git9f3aed1.fc30 systemd-rpm-macros.noarch 239-9.git9f3aed1.fc30 systemd-udev.x86_64 239-9.git9f3aed1.fc30 tbb.x86_64 2019.2-1.fc30 tcl.x86_64 1:8.6.8-2.fc29 torque-libs.x86_64 4.2.10-19.fc30 ucx.x86_64 1.4.0-1.fc30 Complete! Finish: build setup for bionetgen-2.4.0-3.fc30.src.rpm Start: rpmbuild bionetgen-2.4.0-3.fc30.src.rpm Building target platforms: x86_64 Building for target x86_64 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.drhSWX + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf bionetgen-BioNetGen-2.4.0 + /usr/bin/gzip -dc /builddir/build/SOURCES/bionetgen-BioNetGen-2.4.0.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + cd bionetgen-BioNetGen-2.4.0 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch + /usr/bin/cat /builddir/build/SOURCES/bionetgen-network-solver.patch + rm bng2/libsource/Mathutils.tar.gz bng2/libsource/cvode-2.6.0.tar.gz bng2/libsource/gsl-1.9.tar.gz bng2/libsource/muparser_v2_2_4.tar.gz bng2/libsource/muparser_v2_2_4.zip + pushd bng2/Network3 ~/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3 ~/build/BUILD/bionetgen-BioNetGen-2.4.0 + sed -i 's/AC_PROG_LIBTOOL/AM_PROG_AR\nLT_INIT/' configure.ac + sed -i 's/cvode-.*//; s/muparser_.*//' configure.ac Makefile.am + sed -i -r 's/(run_network_LDADD =).*/\1 libmathutils.la -lmuparser -lsundials_nvecserial -lsundials_cvode/' src/Makefile.am + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.BQv2do + umask 022 + cd /builddir/build/BUILD + cd bionetgen-BioNetGen-2.4.0 ~/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3 ~/build/BUILD/bionetgen-BioNetGen-2.4.0 + pushd bng2/Network3 + autoreconf -iv autoreconf: Entering directory `.' autoreconf: configure.ac: not using Gettext autoreconf: running: aclocal -I m4 aclocal: warning: couldn't open directory 'm4': No such file or directory autoreconf: configure.ac: tracing autoreconf: running: libtoolize --copy libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' autoreconf: running: /usr/bin/autoconf autoreconf: running: /usr/bin/autoheader autoreconf: running: automake --add-missing --copy --no-force configure.ac:12: installing './ar-lib' configure.ac:12: installing './compile' configure.ac:16: installing './config.guess' configure.ac:16: installing './config.sub' configure.ac:6: installing './install-sh' configure.ac:6: installing './missing' src/Makefile.am: installing './depcomp' autoreconf: Leaving directory `.' + . /etc/profile.d/modules.sh ++ '[' -z '' ']' ++ '[' -z /usr/share/modulefiles ']' ++ PS_CMD=/usr/bin/ps ++ '[' '!' -x /usr/bin/ps ']' ++ EXPR_CMD=/usr/bin/expr ++ '[' '!' -x /usr/bin/expr ']' ++ BASENAME_CMD=/usr/bin/basename ++ '[' '!' -x /usr/bin/basename ']' +++ /usr/bin/ps -p 66 -ocomm= ++ my_shell=sh +++ /usr/bin/expr sh : '-*\(.*\)' ++ my_shell=sh +++ /usr/bin/basename sh ++ my_shell=sh ++ '[' -f /usr/share/lmod/lmod/init/sh ']' ++ . /usr/share/lmod/lmod/init/sh +++ LMOD_PKG=/usr/share/lmod/lmod +++ LMOD_DIR=/usr/share/lmod/lmod/libexec/ +++ LMOD_CMD=/usr/share/lmod/lmod/libexec/lmod +++ MODULESHOME=/usr/share/lmod/lmod +++ export LMOD_CMD +++ export LMOD_PKG +++ export LMOD_DIR +++ export MODULESHOME +++ export LMOD_DIR ++ unset my_shell PS_CMD EXPR_CMD BASENAME_CMD MODULEPATH_INIT + module load mpi/openmpi-x86_64 ++ /usr/share/lmod/lmod/libexec/lmod sh load mpi/openmpi-x86_64 + eval '__LMOD_REF_COUNT_LD_LIBRARY_PATH=/usr/lib64/openmpi/lib:1;' export '__LMOD_REF_COUNT_LD_LIBRARY_PATH;' 'LD_LIBRARY_PATH=/usr/lib64/openmpi/lib;' export 'LD_LIBRARY_PATH;' '__LMOD_REF_COUNT_LOADEDMODULES=mpi/openmpi-x86_64:1;' export '__LMOD_REF_COUNT_LOADEDMODULES;' 'LOADEDMODULES=mpi/openmpi-x86_64;' export 'LOADEDMODULES;' '__LMOD_REF_COUNT_MANPATH=/usr/share/man/openmpi-x86_64:1\;/usr/share/lmod/lmod/share/man:1;' export '__LMOD_REF_COUNT_MANPATH;' 'MANPATH=/usr/share/man/openmpi-x86_64:/usr/share/lmod/lmod/share/man::;' export 'MANPATH;' '__LMOD_REF_COUNT_MODULEPATH=/etc/modulefiles:1\;/usr/share/modulefiles:1\;/usr/share/modulefiles/Linux:1\;/usr/share/modulefiles/Core:1\;/usr/share/lmod/lmod/modulefiles/Core:1;' export '__LMOD_REF_COUNT_MODULEPATH;' 'MODULEPATH=/etc/modulefiles:/usr/share/modulefiles:/usr/share/modulefiles/Linux:/usr/share/modulefiles/Core:/usr/share/lmod/lmod/modulefiles/Core;' export 'MODULEPATH;' 'MPI_BIN=/usr/lib64/openmpi/bin;' export 'MPI_BIN;' 'MPI_COMPILER=openmpi-x86_64;' export 'MPI_COMPILER;' 'MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi;' export 'MPI_FORTRAN_MOD_DIR;' 'MPI_HOME=/usr/lib64/openmpi;' export 'MPI_HOME;' 'MPI_INCLUDE=/usr/include/openmpi-x86_64;' export 'MPI_INCLUDE;' 'MPI_LIB=/usr/lib64/openmpi/lib;' export 'MPI_LIB;' 'MPI_MAN=/usr/share/man/openmpi-x86_64;' export 'MPI_MAN;' 'MPI_PYTHON2_SITEARCH=/usr/lib64/python2.7/site-packages/openmpi;' export 'MPI_PYTHON2_SITEARCH;' 'MPI_PYTHON3_SITEARCH=/usr/lib64/python3.7/site-packages/openmpi;' export 'MPI_PYTHON3_SITEARCH;' 'MPI_PYTHON_SITEARCH=/usr/lib64/python2.7/site-packages/openmpi;' export 'MPI_PYTHON_SITEARCH;' 'MPI_SUFFIX=_openmpi;' export 'MPI_SUFFIX;' 'MPI_SYSCONFIG=/etc/openmpi-x86_64;' export 'MPI_SYSCONFIG;' '__LMOD_REF_COUNT_PATH=/usr/lib64/openmpi/bin:1\;/builddir/.local/bin:1\;/builddir/bin:1\;/usr/bin:1\;/bin:1\;/usr/sbin:1\;/sbin:1\;/usr/local/sbin:1;' export '__LMOD_REF_COUNT_PATH;' 'PATH=/usr/lib64/openmpi/bin:/builddir/.local/bin:/builddir/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH;' '__LMOD_REF_COUNT_PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig:1\;/usr/lib64/pkgconfig:1\;/usr/share/pkgconfig:1;' export '__LMOD_REF_COUNT_PKG_CONFIG_PATH;' 'PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH;' '__LMOD_REF_COUNT__LMFILES_=/usr/share/modulefiles/mpi/openmpi-x86_64:1;' export '__LMOD_REF_COUNT__LMFILES_;' '_LMFILES_=/usr/share/modulefiles/mpi/openmpi-x86_64;' export '_LMFILES_;' '_ModuleTable001_=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;' export '_ModuleTable001_;' '_ModuleTable002_=ZS9tb2R1bGVmaWxlcy9Db3JlIiwiL3Vzci9zaGFyZS9sbW9kL2xtb2QvbW9kdWxlZmlsZXMvQ29yZSIsfSxbInN5c3RlbUJhc2VNUEFUSCJdPSIvZXRjL21vZHVsZWZpbGVzOi91c3Ivc2hhcmUvbW9kdWxlZmlsZXM6L3Vzci9zaGFyZS9tb2R1bGVmaWxlcy9MaW51eDovdXNyL3NoYXJlL21vZHVsZWZpbGVzL0NvcmU6L3Vzci9zaGFyZS9sbW9kL2xtb2QvbW9kdWxlZmlsZXMvQ29yZSIsfQ==;' export '_ModuleTable002_;' '_ModuleTable_Sz_=2;' export '_ModuleTable_Sz_;' ++ __LMOD_REF_COUNT_LD_LIBRARY_PATH=/usr/lib64/openmpi/lib:1 ++ export __LMOD_REF_COUNT_LD_LIBRARY_PATH ++ LD_LIBRARY_PATH=/usr/lib64/openmpi/lib ++ export LD_LIBRARY_PATH ++ __LMOD_REF_COUNT_LOADEDMODULES=mpi/openmpi-x86_64:1 ++ export __LMOD_REF_COUNT_LOADEDMODULES ++ LOADEDMODULES=mpi/openmpi-x86_64 ++ export LOADEDMODULES ++ __LMOD_REF_COUNT_MANPATH='/usr/share/man/openmpi-x86_64:1;/usr/share/lmod/lmod/share/man:1' ++ export __LMOD_REF_COUNT_MANPATH ++ MANPATH=/usr/share/man/openmpi-x86_64:/usr/share/lmod/lmod/share/man:: ++ export MANPATH ++ __LMOD_REF_COUNT_MODULEPATH='/etc/modulefiles:1;/usr/share/modulefiles:1;/usr/share/modulefiles/Linux:1;/usr/share/modulefiles/Core:1;/usr/share/lmod/lmod/modulefiles/Core:1' ++ export __LMOD_REF_COUNT_MODULEPATH ++ MODULEPATH=/etc/modulefiles:/usr/share/modulefiles:/usr/share/modulefiles/Linux:/usr/share/modulefiles/Core:/usr/share/lmod/lmod/modulefiles/Core ++ export MODULEPATH ++ MPI_BIN=/usr/lib64/openmpi/bin ++ export MPI_BIN ++ MPI_COMPILER=openmpi-x86_64 ++ export MPI_COMPILER ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi ++ export MPI_FORTRAN_MOD_DIR ++ MPI_HOME=/usr/lib64/openmpi ++ export MPI_HOME ++ MPI_INCLUDE=/usr/include/openmpi-x86_64 ++ export MPI_INCLUDE ++ MPI_LIB=/usr/lib64/openmpi/lib ++ export MPI_LIB ++ MPI_MAN=/usr/share/man/openmpi-x86_64 ++ export MPI_MAN ++ MPI_PYTHON2_SITEARCH=/usr/lib64/python2.7/site-packages/openmpi ++ export MPI_PYTHON2_SITEARCH ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.7/site-packages/openmpi ++ export MPI_PYTHON3_SITEARCH ++ MPI_PYTHON_SITEARCH=/usr/lib64/python2.7/site-packages/openmpi ++ export MPI_PYTHON_SITEARCH ++ MPI_SUFFIX=_openmpi ++ export MPI_SUFFIX ++ MPI_SYSCONFIG=/etc/openmpi-x86_64 ++ export MPI_SYSCONFIG ++ __LMOD_REF_COUNT_PATH='/usr/lib64/openmpi/bin:1;/builddir/.local/bin:1;/builddir/bin:1;/usr/bin:1;/bin:1;/usr/sbin:1;/sbin:1;/usr/local/sbin:1' ++ export __LMOD_REF_COUNT_PATH ++ PATH=/usr/lib64/openmpi/bin:/builddir/.local/bin:/builddir/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ __LMOD_REF_COUNT_PKG_CONFIG_PATH='/usr/lib64/openmpi/lib/pkgconfig:1;/usr/lib64/pkgconfig:1;/usr/share/pkgconfig:1' ++ export __LMOD_REF_COUNT_PKG_CONFIG_PATH ++ PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ __LMOD_REF_COUNT__LMFILES_=/usr/share/modulefiles/mpi/openmpi-x86_64:1 ++ export __LMOD_REF_COUNT__LMFILES_ ++ _LMFILES_=/usr/share/modulefiles/mpi/openmpi-x86_64 ++ export _LMFILES_ ++ _ModuleTable001_=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 ++ export _ModuleTable001_ ++ _ModuleTable002_=ZS9tb2R1bGVmaWxlcy9Db3JlIiwiL3Vzci9zaGFyZS9sbW9kL2xtb2QvbW9kdWxlZmlsZXMvQ29yZSIsfSxbInN5c3RlbUJhc2VNUEFUSCJdPSIvZXRjL21vZHVsZWZpbGVzOi91c3Ivc2hhcmUvbW9kdWxlZmlsZXM6L3Vzci9zaGFyZS9tb2R1bGVmaWxlcy9MaW51eDovdXNyL3NoYXJlL21vZHVsZWZpbGVzL0NvcmU6L3Vzci9zaGFyZS9sbW9kL2xtb2QvbW9kdWxlZmlsZXMvQ29yZSIsfQ== ++ export _ModuleTable002_ ++ _ModuleTable_Sz_=2 ++ export _ModuleTable_Sz_ + warnings='-Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized' + CXXFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized' + CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized' + export CXXFLAGS + FFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' + export LDFLAGS + '[' 1 = 1 ']' +++ dirname ./configure ++ find . -name config.guess -o -name config.sub + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./config.sub + '[' -f /usr/lib/rpm/redhat/config.sub ']' + /usr/bin/rm -f ./config.sub ++ basename ./config.sub + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./config.sub '/usr/lib/rpm/redhat/config.sub' -> './config.sub' + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./config.guess + '[' -f /usr/lib/rpm/redhat/config.guess ']' + /usr/bin/rm -f ./config.guess ++ basename ./config.guess + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./config.guess '/usr/lib/rpm/redhat/config.guess' -> './config.guess' + '[' 1 = 1 ']' + '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']' ++ find . -name ltmain.sh + for i in $(find . -name ltmain.sh) + /usr/bin/sed -i.backup -e 's~compiler_flags=$~compiler_flags="-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld"~' ./ltmain.sh + ./configure --build=x86_64-redhat-linux-gnu --host=x86_64-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make supports the include directive... yes (GNU style) checking for x86_64-redhat-linux-gnu-gcc... no checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether 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 x86_64-redhat-linux-gnu-ar... no checking for x86_64-redhat-linux-gnu-lib... no checking for x86_64-redhat-linux-gnu-link... no checking for ar... ar checking the archiver (ar) interface... ar checking for x86_64-redhat-linux-gnu-ar... ar checking the archiver (ar) interface... (cached) ar checking build system type... x86_64-redhat-linux-gnu checking host system type... x86_64-redhat-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-redhat-linux-gnu file names to x86_64-redhat-linux-gnu format... func_convert_file_noop checking how to convert x86_64-redhat-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for x86_64-redhat-linux-gnu-objdump... no checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for x86_64-redhat-linux-gnu-dlltool... no checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for x86_64-redhat-linux-gnu-ar... (cached) ar checking for archiver @FILE support... @ checking for x86_64-redhat-linux-gnu-strip... no checking for strip... strip checking for x86_64-redhat-linux-gnu-ranlib... no checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for x86_64-redhat-linux-gnu-mt... no checking for mt... no checking if : is a manifest tool... no checking how to run the C preprocessor... gcc -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 dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... no checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for x86_64-redhat-linux-gnu-g++... no checking for x86_64-redhat-linux-gnu-c++... no checking for x86_64-redhat-linux-gnu-gpp... no checking for x86_64-redhat-linux-gnu-aCC... no checking for x86_64-redhat-linux-gnu-CC... no checking for x86_64-redhat-linux-gnu-cxx... no checking for x86_64-redhat-linux-gnu-cc++... no checking for x86_64-redhat-linux-gnu-cl.exe... no checking for x86_64-redhat-linux-gnu-FCC... no checking for x86_64-redhat-linux-gnu-KCC... no checking for x86_64-redhat-linux-gnu-RCC... no checking for x86_64-redhat-linux-gnu-xlC_r... no checking for x86_64-redhat-linux-gnu-xlC... no checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... no checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for gawk... (cached) gawk checking for x86_64-redhat-linux-gnu-gcc... gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking whether gcc understands -c and -o together... (cached) yes checking dependency style of gcc... (cached) none checking how to run the C preprocessor... gcc -E checking whether ln -s works... yes checking whether make sets $(MAKE)... (cached) yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for inline... inline checking for size_t... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for floor... no checking for pow... no checking for rint... no checking for sqrt... no checking for strchr... yes checking for strdup... yes checking for strpbrk... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands + /usr/bin/make -O -j2 -C src make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o run_network-network.o `test -f 'network.cpp' || echo './'`network.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o run_network-network3.o `test -f 'network3.cpp' || echo './'`network3.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o util/run_network-misc.o `test -f 'util/misc.cpp' || echo './'`util/misc.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/run_network-function.o `test -f 'model/function.cpp' || echo './'`model/function.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/run_network-observable.o `test -f 'model/observable.cpp' || echo './'`model/observable.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/run_network-rateExpression.o `test -f 'model/rateExpression.cpp' || echo './'`model/rateExpression.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o run_network-run_network.o `test -f 'run_network.cpp' || echo './'`run_network.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/run_network-simpleSpecies.o `test -f 'model/simpleSpecies.cpp' || echo './'`model/simpleSpecies.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/run_network-reaction.o `test -f 'model/reaction.cpp' || echo './'`model/reaction.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/rateExpressions/run_network-rateElementary.o `test -f 'model/rateExpressions/rateElementary.cpp' || echo './'`model/rateExpressions/rateElementary.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/rateExpressions/run_network-rateMM.o `test -f 'model/rateExpressions/rateMM.cpp' || echo './'`model/rateExpressions/rateMM.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/rateExpressions/run_network-rateHill.o `test -f 'model/rateExpressions/rateHill.cpp' || echo './'`model/rateExpressions/rateHill.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/rateExpressions/run_network-rateMuParser.o `test -f 'model/rateExpressions/rateMuParser.cpp' || echo './'`model/rateExpressions/rateMuParser.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/rateExpressions/run_network-rateSaturation.o `test -f 'model/rateExpressions/rateSaturation.cpp' || echo './'`model/rateExpressions/rateSaturation.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/reactions/run_network-elementaryRxn.o `test -f 'model/reactions/elementaryRxn.cpp' || echo './'`model/reactions/elementaryRxn.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/reactions/run_network-bioNetGenRxn.o `test -f 'model/reactions/bioNetGenRxn.cpp' || echo './'`model/reactions/bioNetGenRxn.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/reactions/run_network-functionalRxn.o `test -f 'model/reactions/functionalRxn.cpp' || echo './'`model/reactions/functionalRxn.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/reactions/run_network-hillRxn.o `test -f 'model/reactions/hillRxn.cpp' || echo './'`model/reactions/hillRxn.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/reactions/run_network-michaelisMentenRxn.o `test -f 'model/reactions/michaelisMentenRxn.cpp' || echo './'`model/reactions/michaelisMentenRxn.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o model/reactions/run_network-saturationRxn.o `test -f 'model/reactions/saturationRxn.cpp' || echo './'`model/reactions/saturationRxn.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/base/run_network-firingGenerator.o `test -f 'pla/base/firingGenerator.cpp' || echo './'`pla/base/firingGenerator.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/run_network-PLA.o `test -f 'pla/PLA.cpp' || echo './'`pla/PLA.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/base/run_network-postleapChecker.o `test -f 'pla/base/postleapChecker.cpp' || echo './'`pla/base/postleapChecker.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/base/run_network-rxnClassifier.o `test -f 'pla/base/rxnClassifier.cpp' || echo './'`pla/base/rxnClassifier.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/base/run_network-tauCalculator.o `test -f 'pla/base/tauCalculator.cpp' || echo './'`pla/base/tauCalculator.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/run_network-eRungeKutta_postTC_RC_FG_rbPL.o `test -f 'pla/eRungeKutta/eRungeKutta_postTC_RC_FG_rbPL.cpp' || echo './'`pla/eRungeKutta/eRungeKutta_postTC_RC_FG_rbPL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/run_network-eRungeKutta_postTC_RC_FG_sbPL.o `test -f 'pla/eRungeKutta/eRungeKutta_postTC_RC_FG_sbPL.cpp' || echo './'`pla/eRungeKutta/eRungeKutta_postTC_RC_FG_sbPL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/run_network-eRungeKutta_preTC_RC_FG_negPL.o `test -f 'pla/eRungeKutta/eRungeKutta_preTC_RC_FG_negPL.cpp' || echo './'`pla/eRungeKutta/eRungeKutta_preTC_RC_FG_negPL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/run_network-eRungeKutta_preTC_RC_FG_rbPL.o `test -f 'pla/eRungeKutta/eRungeKutta_preTC_RC_FG_rbPL.cpp' || echo './'`pla/eRungeKutta/eRungeKutta_preTC_RC_FG_rbPL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/run_network-eRungeKutta_preTC_RC_FG_sbPL.o `test -f 'pla/eRungeKutta/eRungeKutta_preTC_RC_FG_sbPL.cpp' || echo './'`pla/eRungeKutta/eRungeKutta_preTC_RC_FG_sbPL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/base/run_network-eRungeKutta_TC_RC_FG_PL.o `test -f 'pla/eRungeKutta/base/eRungeKutta_TC_RC_FG_PL.cpp' || echo './'`pla/eRungeKutta/base/eRungeKutta_TC_RC_FG_PL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/base/run_network-eRungeKutta_TC_RC_FG_rbPL.o `test -f 'pla/eRungeKutta/base/eRungeKutta_TC_RC_FG_rbPL.cpp' || echo './'`pla/eRungeKutta/base/eRungeKutta_TC_RC_FG_rbPL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/base/run_network-eRungeKutta_TC_RC_FG_sbPL.o `test -f 'pla/eRungeKutta/base/eRungeKutta_TC_RC_FG_sbPL.cpp' || echo './'`pla/eRungeKutta/base/eRungeKutta_TC_RC_FG_sbPL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/util/run_network-binomialCorrector_RK.o `test -f 'pla/eRungeKutta/util/binomialCorrector_RK.cpp' || echo './'`pla/eRungeKutta/util/binomialCorrector_RK.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/util/run_network-aEff_Calculator.o `test -f 'pla/eRungeKutta/util/aEff_Calculator.cpp' || echo './'`pla/eRungeKutta/util/aEff_Calculator.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/eRungeKutta/util/run_network-butcherTableau.o `test -f 'pla/eRungeKutta/util/butcherTableau.cpp' || echo './'`pla/eRungeKutta/util/butcherTableau.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/fEuler/run_network-fEuler_FG.o `test -f 'pla/fEuler/fEuler_FG.cpp' || echo './'`pla/fEuler/fEuler_FG.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/fEuler/run_network-fEulerPreleapRB_TC.o `test -f 'pla/fEuler/fEulerPreleapRB_TC.cpp' || echo './'`pla/fEuler/fEulerPreleapRB_TC.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/fEuler/run_network-fEulerPreleapSB_TC.o `test -f 'pla/fEuler/fEulerPreleapSB_TC.cpp' || echo './'`pla/fEuler/fEulerPreleapSB_TC.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/fEuler/run_network-fEulerRB_TC_PL.o `test -f 'pla/fEuler/fEulerRB_TC_PL.cpp' || echo './'`pla/fEuler/fEulerRB_TC_PL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/fEuler/run_network-fEulerRB_PL.o `test -f 'pla/fEuler/fEulerRB_PL.cpp' || echo './'`pla/fEuler/fEulerRB_PL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/fEuler/run_network-fEuler_RC.o `test -f 'pla/fEuler/fEuler_RC.cpp' || echo './'`pla/fEuler/fEuler_RC.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/fEuler/run_network-fEulerSB_PL.o `test -f 'pla/fEuler/fEulerSB_PL.cpp' || echo './'`pla/fEuler/fEulerSB_PL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/fEuler/run_network-fEulerSB_TC_PL.o `test -f 'pla/fEuler/fEulerSB_TC_PL.cpp' || echo './'`pla/fEuler/fEulerSB_TC_PL.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/util/run_network-negPopChecker.o `test -f 'pla/util/negPopChecker.cpp' || echo './'`pla/util/negPopChecker.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/util/run_network-g_Getter.o `test -f 'pla/util/g_Getter.cpp' || echo './'`pla/util/g_Getter.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/util/run_network-preleap_TC.o `test -f 'pla/util/preleap_TC.cpp' || echo './'`pla/util/preleap_TC.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/util/run_network-rbChecker.o `test -f 'pla/util/rbChecker.cpp' || echo './'`pla/util/rbChecker.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/util/run_network-sbChecker.o `test -f 'pla/util/sbChecker.cpp' || echo './'`pla/util/sbChecker.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o pla/util/run_network-fixed_TC.o `test -f 'pla/util/fixed_TC.cpp' || echo './'`pla/util/fixed_TC.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o util/run_network-rand.o `test -f 'util/rand.cpp' || echo './'`util/rand.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o util/MTrand/run_network-mtrand.o `test -f 'util/MTrand/mtrand.cpp' || echo './'`util/MTrand/mtrand.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o util/rand2/run_network-rand2.o `test -f 'util/rand2/rand2.cpp' || echo './'`util/rand2/rand2.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -c -o util/run_network-conversion.o `test -f 'util/conversion.cpp' || echo './'`util/conversion.cpp make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/cabs.lo util/mathutils/cabs.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cabs.c -fPIC -DPIC -o util/mathutils/.libs/cabs.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cabs.c -o util/mathutils/cabs.o >/dev/null 2>&1 In file included from util/mathutils/cabs.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/allocate.lo util/mathutils/allocate.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/allocate.c -fPIC -DPIC -o util/mathutils/.libs/allocate.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/allocate.c -o util/mathutils/allocate.o >/dev/null 2>&1 util/mathutils/allocate.c: In function 'ALLOC_MATRIX': util/mathutils/allocate.c:9:20: warning: unused variable 'j' [-Wunused-variable] register int i,j; ^ util/mathutils/allocate.c: In function 'IALLOC_MATRIX': util/mathutils/allocate.c:100:20: warning: unused variable 'j' [-Wunused-variable] register int i,j; ^ util/mathutils/allocate.c: In function 'ZALLOC_MATRIX': util/mathutils/allocate.c:191:20: warning: unused variable 'j' [-Wunused-variable] register int i,j; ^ In file included from util/mathutils/allocate.c:1: At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/cadd.lo util/mathutils/cadd.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cadd.c -fPIC -DPIC -o util/mathutils/.libs/cadd.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cadd.c -o util/mathutils/cadd.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/cadd.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/cconj.lo util/mathutils/cconj.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cconj.c -fPIC -DPIC -o util/mathutils/.libs/cconj.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cconj.c -o util/mathutils/cconj.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/cconj.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/cmult.lo util/mathutils/cmult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cmult.c -fPIC -DPIC -o util/mathutils/.libs/cmult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cmult.c -o util/mathutils/cmult.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/cmult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/complex_zero.lo util/mathutils/complex_zero.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/complex_zero.c -fPIC -DPIC -o util/mathutils/.libs/complex_zero.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/complex_zero.c -o util/mathutils/complex_zero.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/complex_zero.c:2: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/copy_vector.lo util/mathutils/copy_vector.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/copy_vector.c -fPIC -DPIC -o util/mathutils/.libs/copy_vector.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/copy_vector.c -o util/mathutils/copy_vector.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/copy_vector.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/cprob.lo util/mathutils/cprob.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cprob.c -fPIC -DPIC -o util/mathutils/.libs/cprob.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/cprob.c -o util/mathutils/cprob.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/cprob.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/csub.lo util/mathutils/csub.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/csub.c -fPIC -DPIC -o util/mathutils/.libs/csub.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/csub.c -o util/mathutils/csub.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/csub.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/dotp.lo util/mathutils/dotp.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/dotp.c -fPIC -DPIC -o util/mathutils/.libs/dotp.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/dotp.c -o util/mathutils/dotp.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/dotp.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/eigensystem.lo util/mathutils/eigensystem.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/eigensystem.c -fPIC -DPIC -o util/mathutils/.libs/eigensystem.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/eigensystem.c -o util/mathutils/eigensystem.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/eigensystem.c:1: util/mathutils/eigensystem.c: In function 'SYM_EIGENSYSTEM': util/mathutils/eigensystem.c:27:11: warning: implicit declaration of function 'dsyev' [-Wimplicit-function-declaration] FNAME(dsyev)(&jobz, &uplo, &N, A[0], &N, evals, work, &lwork, &info); ^~~~~ util/mathutils/mathutils.h:18:20: note: in definition of macro 'FNAME' #define FNAME(fun) fun ^~~ util/mathutils/eigensystem.c: In function 'GEN_SYM_EIGENSYSTEM': util/mathutils/eigensystem.c:58:11: warning: implicit declaration of function 'dsygv' [-Wimplicit-function-declaration] FNAME(dsygv)(&itype, &jobz, &uplo, &N, A[0], &N, B[0], &N, evals, work, ^~~~~ util/mathutils/mathutils.h:18:20: note: in definition of macro 'FNAME' #define FNAME(fun) fun ^~~ At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/expi.lo util/mathutils/expi.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/expi.c -fPIC -DPIC -o util/mathutils/.libs/expi.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/expi.c -o util/mathutils/expi.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/expi.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/herm_matrix_mult.lo util/mathutils/herm_matrix_mult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/herm_matrix_mult.c -fPIC -DPIC -o util/mathutils/.libs/herm_matrix_mult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/herm_matrix_mult.c -o util/mathutils/herm_matrix_mult.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/herm_matrix_mult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/gram_schmidt.lo util/mathutils/gram_schmidt.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/gram_schmidt.c -fPIC -DPIC -o util/mathutils/.libs/gram_schmidt.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/gram_schmidt.c -o util/mathutils/gram_schmidt.o >/dev/null 2>&1 In file included from util/mathutils/gram_schmidt.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/herm_matrix_vector_mult.lo util/mathutils/herm_matrix_vector_mult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/herm_matrix_vector_mult.c -fPIC -DPIC -o util/mathutils/.libs/herm_matrix_vector_mult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/herm_matrix_vector_mult.c -o util/mathutils/herm_matrix_vector_mult.o >/dev/null 2>&1 In file included from util/mathutils/herm_matrix_vector_mult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/icmult.lo util/mathutils/icmult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/icmult.c -fPIC -DPIC -o util/mathutils/.libs/icmult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/icmult.c -o util/mathutils/icmult.o >/dev/null 2>&1 In file included from util/mathutils/icmult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/init.lo util/mathutils/init.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/init.c -fPIC -DPIC -o util/mathutils/.libs/init.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/init.c -o util/mathutils/init.o >/dev/null 2>&1 In file included from util/mathutils/init.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/integration.lo util/mathutils/integration.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/integration.c -fPIC -DPIC -o util/mathutils/.libs/integration.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/integration.c -o util/mathutils/integration.o >/dev/null 2>&1 In file included from util/mathutils/integration.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/linsolve.lo util/mathutils/linsolve.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/linsolve.c -fPIC -DPIC -o util/mathutils/.libs/linsolve.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/linsolve.c -o util/mathutils/linsolve.o >/dev/null 2>&1 util/mathutils/linsolve.c: In function 'LINSOLVE': util/mathutils/linsolve.c:16:20: warning: unused variable 'j' [-Wunused-variable] register int i,j; ^ util/mathutils/linsolve.c:16:18: warning: unused variable 'i' [-Wunused-variable] register int i,j; ^ In file included from util/mathutils/linsolve.c:1: At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/matherr.lo util/mathutils/matherr.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matherr.c -fPIC -DPIC -o util/mathutils/.libs/matherr.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matherr.c -o util/mathutils/matherr.o >/dev/null 2>&1 In file included from util/mathutils/matherr.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/matrix_add.lo util/mathutils/matrix_add.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_add.c -fPIC -DPIC -o util/mathutils/.libs/matrix_add.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_add.c -o util/mathutils/matrix_add.o >/dev/null 2>&1 In file included from util/mathutils/matrix_add.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/matrix_elt.lo util/mathutils/matrix_elt.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_elt.c -fPIC -DPIC -o util/mathutils/.libs/matrix_elt.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_elt.c -o util/mathutils/matrix_elt.o >/dev/null 2>&1 In file included from util/mathutils/matrix_elt.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/matrix_mult.lo util/mathutils/matrix_mult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_mult.c -fPIC -DPIC -o util/mathutils/.libs/matrix_mult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_mult.c -o util/mathutils/matrix_mult.o >/dev/null 2>&1 In file included from util/mathutils/matrix_mult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/matrix_sub.lo util/mathutils/matrix_sub.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_sub.c -fPIC -DPIC -o util/mathutils/.libs/matrix_sub.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_sub.c -o util/mathutils/matrix_sub.o >/dev/null 2>&1 In file included from util/mathutils/matrix_sub.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/matrix_transpose.lo util/mathutils/matrix_transpose.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_transpose.c -fPIC -DPIC -o util/mathutils/.libs/matrix_transpose.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_transpose.c -o util/mathutils/matrix_transpose.o >/dev/null 2>&1 In file included from util/mathutils/matrix_transpose.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/matrix_vector_mult.lo util/mathutils/matrix_vector_mult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_vector_mult.c -fPIC -DPIC -o util/mathutils/.libs/matrix_vector_mult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrix_vector_mult.c -o util/mathutils/matrix_vector_mult.o >/dev/null 2>&1 In file included from util/mathutils/matrix_vector_mult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/matrixexp.lo util/mathutils/matrixexp.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrixexp.c -fPIC -DPIC -o util/mathutils/.libs/matrixexp.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/matrixexp.c -o util/mathutils/matrixexp.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/matrixexp.c:5: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/minimum.lo util/mathutils/minimum.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/minimum.c -fPIC -DPIC -o util/mathutils/.libs/minimum.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/minimum.c -o util/mathutils/minimum.o >/dev/null 2>&1 util/mathutils/minimum.c: In function 'MIN_BRACKET': util/mathutils/minimum.c:17:26: warning: unused variable 'dum' [-Wunused-variable] double ulim,u,r,q,fu,dum; ^~~ In file included from util/mathutils/minimum.c:3: At top level: util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ util/mathutils/minimum.c: In function 'MIN_FIND': util/mathutils/minimum.c:117:31: warning: 'e' may be used uninitialized in this function [-Wmaybe-uninitialized] if (fabs(p) >= fabs(0.5*q*etemp) || p <= q*(a-x) || p >= q*(b-x)) ~~~~~^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/norm.lo util/mathutils/norm.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/norm.c -fPIC -DPIC -o util/mathutils/.libs/norm.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/norm.c -o util/mathutils/norm.o >/dev/null 2>&1 util/mathutils/norm.c: In function 'NORM': util/mathutils/norm.c:14:12: warning: unused variable 'norm' [-Wunused-variable] double norm; ^~~~ In file included from util/mathutils/norm.c:1: At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/normsq.lo util/mathutils/normsq.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/normsq.c -fPIC -DPIC -o util/mathutils/.libs/normsq.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/normsq.c -o util/mathutils/normsq.o >/dev/null 2>&1 util/mathutils/normsq.c: In function 'NORMSQ': util/mathutils/normsq.c:13:12: warning: unused variable 'norm' [-Wunused-variable] double norm; ^~~~ In file included from util/mathutils/normsq.c:1: At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/project.lo util/mathutils/project.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/project.c -fPIC -DPIC -o util/mathutils/.libs/project.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/project.c -o util/mathutils/project.o >/dev/null 2>&1 In file included from util/mathutils/project.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/random.lo util/mathutils/random.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/random.c -fPIC -DPIC -o util/mathutils/.libs/random.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/random.c -o util/mathutils/random.o >/dev/null 2>&1 In file included from util/mathutils/random.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/rcmult.lo util/mathutils/rcmult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/rcmult.c -fPIC -DPIC -o util/mathutils/.libs/rcmult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/rcmult.c -o util/mathutils/rcmult.o >/dev/null 2>&1 In file included from util/mathutils/rcmult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/rect_transpose.lo util/mathutils/rect_transpose.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/rect_transpose.c -fPIC -DPIC -o util/mathutils/.libs/rect_transpose.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/rect_transpose.c -o util/mathutils/rect_transpose.o >/dev/null 2>&1 util/mathutils/rect_transpose.c: In function 'RECT_TRANSPOSE': util/mathutils/rect_transpose.c:5:26: warning: unused variable 'Atptr' [-Wunused-variable] double **At, *Aptr, *Atptr; ^~~~~ util/mathutils/rect_transpose.c:5:19: warning: unused variable 'Aptr' [-Wunused-variable] double **At, *Aptr, *Atptr; ^~~~ In file included from util/mathutils/rect_transpose.c:1: At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/roots.lo util/mathutils/roots.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/roots.c -fPIC -DPIC -o util/mathutils/.libs/roots.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/roots.c -o util/mathutils/roots.o >/dev/null 2>&1 In file included from util/mathutils/roots.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ util/mathutils/roots.c: In function 'ROOT_FIND': util/mathutils/roots.c:69:17: warning: 'e' may be used uninitialized in this function [-Wmaybe-uninitialized] min2=fabs(e*q); ~^~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/scale_vector.lo util/mathutils/scale_vector.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/scale_vector.c -fPIC -DPIC -o util/mathutils/.libs/scale_vector.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/scale_vector.c -o util/mathutils/scale_vector.o >/dev/null 2>&1 In file included from util/mathutils/scale_vector.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/runge-kutta.lo util/mathutils/runge-kutta.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/runge-kutta.c -fPIC -DPIC -o util/mathutils/.libs/runge-kutta.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/runge-kutta.c -o util/mathutils/runge-kutta.o >/dev/null 2>&1 In file included from util/mathutils/runge-kutta.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/sum_vector.lo util/mathutils/sum_vector.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sum_vector.c -fPIC -DPIC -o util/mathutils/.libs/sum_vector.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sum_vector.c -o util/mathutils/sum_vector.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/sum_vector.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/splines.lo util/mathutils/splines.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/splines.c -fPIC -DPIC -o util/mathutils/.libs/splines.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/splines.c -o util/mathutils/splines.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/splines.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/sym_linsolve.lo util/mathutils/sym_linsolve.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sym_linsolve.c -fPIC -DPIC -o util/mathutils/.libs/sym_linsolve.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sym_linsolve.c -o util/mathutils/sym_linsolve.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/sym_linsolve.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/sym_matrix_mult.lo util/mathutils/sym_matrix_mult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sym_matrix_mult.c -fPIC -DPIC -o util/mathutils/.libs/sym_matrix_mult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sym_matrix_mult.c -o util/mathutils/sym_matrix_mult.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/sym_matrix_mult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/sym_matrix_vector_mult.lo util/mathutils/sym_matrix_vector_mult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sym_matrix_vector_mult.c -fPIC -DPIC -o util/mathutils/.libs/sym_matrix_vector_mult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sym_matrix_vector_mult.c -o util/mathutils/sym_matrix_vector_mult.o >/dev/null 2>&1 In file included from util/mathutils/sym_matrix_vector_mult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/svd.lo util/mathutils/svd.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/svd.c -fPIC -DPIC -o util/mathutils/.libs/svd.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/svd.c -o util/mathutils/svd.o >/dev/null 2>&1 In file included from util/mathutils/svd.c:2: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/sympos_linsolve.lo util/mathutils/sympos_linsolve.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sympos_linsolve.c -fPIC -DPIC -o util/mathutils/.libs/sympos_linsolve.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/sympos_linsolve.c -o util/mathutils/sympos_linsolve.o >/dev/null 2>&1 In file included from util/mathutils/sympos_linsolve.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/test_transpose.lo util/mathutils/test_transpose.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/test_transpose.c -fPIC -DPIC -o util/mathutils/.libs/test_transpose.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/test_transpose.c -o util/mathutils/test_transpose.o >/dev/null 2>&1 util/mathutils/test_transpose.c:3:1: warning: return type defaults to 'int' [-Wimplicit-int] main() ^~~~ In file included from util/mathutils/test_transpose.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/testdummy.lo util/mathutils/testdummy.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testdummy.c -fPIC -DPIC -o util/mathutils/.libs/testdummy.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testdummy.c -o util/mathutils/testdummy.o >/dev/null 2>&1 util/mathutils/testdummy.c:3:1: warning: return type defaults to 'int' [-Wimplicit-int] main(){ ^~~~ util/mathutils/testdummy.c: In function 'main': util/mathutils/testdummy.c:5:9: warning: unused variable 'incx' [-Wunused-variable] int incx=1; ^~~~ util/mathutils/testdummy.c:9:5: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] scanf("%d", &n); ^~~~~~~~~~~~~~~ util/mathutils/testdummy.c:15:2: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] scanf("%lf", x+i); ^~~~~~~~~~~~~~~~~ In file included from util/mathutils/testdummy.c:1: At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/testgram.lo util/mathutils/testgram.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testgram.c -fPIC -DPIC -o util/mathutils/.libs/testgram.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testgram.c -o util/mathutils/testgram.o >/dev/null 2>&1 util/mathutils/testgram.c:3:1: warning: return type defaults to 'int' [-Wimplicit-int] main(int argc, char *argv[]){ ^~~~ util/mathutils/testgram.c: In function 'main': util/mathutils/testgram.c:7:63: warning: unused variable 'V' [-Wunused-variable] double **A, **At, **G, **Gt, **GtG, **U, **Ut, **UtU, *w, **V, norm; ^ util/mathutils/testgram.c:7:58: warning: unused variable 'w' [-Wunused-variable] double **A, **At, **G, **Gt, **GtG, **U, **Ut, **UtU, *w, **V, norm; ^ util/mathutils/testgram.c:7:52: warning: unused variable 'UtU' [-Wunused-variable] double **A, **At, **G, **Gt, **GtG, **U, **Ut, **UtU, *w, **V, norm; ^~~ util/mathutils/testgram.c:7:46: warning: unused variable 'Ut' [-Wunused-variable] double **A, **At, **G, **Gt, **GtG, **U, **Ut, **UtU, *w, **V, norm; ^~ util/mathutils/testgram.c:5:7: warning: unused variable 'nr' [-Wunused-variable] int nr, n_run; ^~ In file included from util/mathutils/testgram.c:1: At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/testspline.lo util/mathutils/testspline.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testspline.c -fPIC -DPIC -o util/mathutils/.libs/testspline.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testspline.c -o util/mathutils/testspline.o >/dev/null 2>&1 util/mathutils/testspline.c:7:1: warning: return type defaults to 'int' [-Wimplicit-int] main() ^~~~ In file included from util/mathutils/testspline.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/testsvd.lo util/mathutils/testsvd.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testsvd.c -fPIC -DPIC -o util/mathutils/.libs/testsvd.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testsvd.c -o util/mathutils/testsvd.o >/dev/null 2>&1 util/mathutils/testsvd.c:3:1: warning: return type defaults to 'int' [-Wimplicit-int] main(int argc, char *argv[]){ ^~~~ util/mathutils/testsvd.c: In function 'main': util/mathutils/testsvd.c:7:28: warning: unused variable 'GtG' [-Wunused-variable] double **A, **G, **Gt, **GtG, **U, **Ut, **UtU, *w, **V, norm; ^~~ util/mathutils/testsvd.c:7:22: warning: unused variable 'Gt' [-Wunused-variable] double **A, **G, **Gt, **GtG, **U, **Ut, **UtU, *w, **V, norm; ^~ util/mathutils/testsvd.c:7:17: warning: unused variable 'G' [-Wunused-variable] double **A, **G, **Gt, **GtG, **U, **Ut, **UtU, *w, **V, norm; ^ In file included from util/mathutils/testsvd.c:1: At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/vector_add.lo util/mathutils/vector_add.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/vector_add.c -fPIC -DPIC -o util/mathutils/.libs/vector_add.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/vector_add.c -o util/mathutils/vector_add.o >/dev/null 2>&1 In file included from util/mathutils/vector_add.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/vector_dist.lo util/mathutils/vector_dist.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/vector_dist.c -fPIC -DPIC -o util/mathutils/.libs/vector_dist.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/vector_dist.c -o util/mathutils/vector_dist.o >/dev/null 2>&1 In file included from util/mathutils/vector_dist.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zcopy_vector.lo util/mathutils/zcopy_vector.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zcopy_vector.c -fPIC -DPIC -o util/mathutils/.libs/zcopy_vector.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zcopy_vector.c -o util/mathutils/zcopy_vector.o >/dev/null 2>&1 In file included from util/mathutils/zcopy_vector.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zdotc.lo util/mathutils/zdotc.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zdotc.c -fPIC -DPIC -o util/mathutils/.libs/zdotc.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zdotc.c -o util/mathutils/zdotc.o >/dev/null 2>&1 In file included from util/mathutils/zdotc.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/testutils.lo util/mathutils/testutils.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testutils.c -fPIC -DPIC -o util/mathutils/.libs/testutils.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/testutils.c -o util/mathutils/testutils.o >/dev/null 2>&1 util/mathutils/testutils.c:6:1: warning: return type defaults to 'int' [-Wimplicit-int] main (int argc, char *argv[]) ^~~~ util/mathutils/testutils.c: In function 'main': util/mathutils/testutils.c:15:12: warning: unused variable 'z1' [-Wunused-variable] dcomplex z1; ^~ util/mathutils/testutils.c:10:7: warning: unused variable 'seed' [-Wunused-variable] int seed; ^~~~ util/mathutils/testutils.c:8:11: warning: unused variable 'k' [-Wunused-variable] int i,j,k; ^ In file included from util/mathutils/testutils.c:2: At top level: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zdotu.lo util/mathutils/zdotu.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zdotu.c -fPIC -DPIC -o util/mathutils/.libs/zdotu.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zdotu.c -o util/mathutils/zdotu.o >/dev/null 2>&1 In file included from util/mathutils/zdotu.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zmatrix_add.lo util/mathutils/zmatrix_add.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_add.c -fPIC -DPIC -o util/mathutils/.libs/zmatrix_add.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_add.c -o util/mathutils/zmatrix_add.o >/dev/null 2>&1 In file included from util/mathutils/zmatrix_add.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zmatrix_mult.lo util/mathutils/zmatrix_mult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_mult.c -fPIC -DPIC -o util/mathutils/.libs/zmatrix_mult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_mult.c -o util/mathutils/zmatrix_mult.o >/dev/null 2>&1 In file included from util/mathutils/zmatrix_mult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zmatrix_sub.lo util/mathutils/zmatrix_sub.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_sub.c -fPIC -DPIC -o util/mathutils/.libs/zmatrix_sub.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_sub.c -o util/mathutils/zmatrix_sub.o >/dev/null 2>&1 In file included from util/mathutils/zmatrix_sub.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zmatrix_transpose.lo util/mathutils/zmatrix_transpose.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_transpose.c -fPIC -DPIC -o util/mathutils/.libs/zmatrix_transpose.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_transpose.c -o util/mathutils/zmatrix_transpose.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/zmatrix_transpose.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zmatrix_vector_mult.lo util/mathutils/zmatrix_vector_mult.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_vector_mult.c -fPIC -DPIC -o util/mathutils/.libs/zmatrix_vector_mult.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zmatrix_vector_mult.c -o util/mathutils/zmatrix_vector_mult.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/zmatrix_vector_mult.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/znorm.lo util/mathutils/znorm.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/znorm.c -fPIC -DPIC -o util/mathutils/.libs/znorm.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/znorm.c -o util/mathutils/znorm.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/znorm.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/znormsq.lo util/mathutils/znormsq.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/znormsq.c -fPIC -DPIC -o util/mathutils/.libs/znormsq.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/znormsq.c -o util/mathutils/znormsq.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/znormsq.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zrscale_vector.lo util/mathutils/zrscale_vector.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zrscale_vector.c -fPIC -DPIC -o util/mathutils/.libs/zrscale_vector.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zrscale_vector.c -o util/mathutils/zrscale_vector.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/zrscale_vector.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zscale_vector.lo util/mathutils/zscale_vector.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zscale_vector.c -fPIC -DPIC -o util/mathutils/.libs/zscale_vector.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zscale_vector.c -o util/mathutils/zscale_vector.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/zscale_vector.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zsum_vector.lo util/mathutils/zsum_vector.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zsum_vector.c -fPIC -DPIC -o util/mathutils/.libs/zsum_vector.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zsum_vector.c -o util/mathutils/zsum_vector.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/zsum_vector.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c -o util/mathutils/zsym_linsolve.lo util/mathutils/zsym_linsolve.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zsym_linsolve.c -fPIC -DPIC -o util/mathutils/.libs/zsym_linsolve.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c util/mathutils/zsym_linsolve.c -o util/mathutils/zsym_linsolve.o >/dev/null 2>&1 make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' In file included from util/mathutils/zsym_linsolve.c:1: util/mathutils/mathutils.h:364:15: warning: 'dswap' defined but not used [-Wunused-variable] static double dswap; ^~~~~ util/mathutils/mathutils.h:359:20: warning: 'imarg2' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:359:12: warning: 'imarg1' defined but not used [-Wunused-variable] static int imarg1, imarg2; ^~~~~~ util/mathutils/mathutils.h:356:22: warning: 'marg2' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:356:15: warning: 'marg1' defined but not used [-Wunused-variable] static double marg1, marg2; ^~~~~ util/mathutils/mathutils.h:354:12: warning: 'isqrarg' defined but not used [-Wunused-variable] static int isqrarg; ^~~~~~~ util/mathutils/mathutils.h:352:15: warning: 'sqrarg' defined but not used [-Wunused-variable] static double sqrarg; ^~~~~~ make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CC --mode=link gcc -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o libmathutils.la util/mathutils/allocate.lo util/mathutils/cabs.lo util/mathutils/cadd.lo util/mathutils/cconj.lo util/mathutils/cmult.lo util/mathutils/complex_zero.lo util/mathutils/copy_vector.lo util/mathutils/cprob.lo util/mathutils/csub.lo util/mathutils/dotp.lo util/mathutils/eigensystem.lo util/mathutils/expi.lo util/mathutils/gram_schmidt.lo util/mathutils/herm_matrix_mult.lo util/mathutils/herm_matrix_vector_mult.lo util/mathutils/icmult.lo util/mathutils/init.lo util/mathutils/integration.lo util/mathutils/linsolve.lo util/mathutils/matherr.lo util/mathutils/matrix_add.lo util/mathutils/matrix_elt.lo util/mathutils/matrix_mult.lo util/mathutils/matrix_sub.lo util/mathutils/matrix_transpose.lo util/mathutils/matrix_vector_mult.lo util/mathutils/matrixexp.lo util/mathutils/minimum.lo util/mathutils/norm.lo util/mathutils/normsq.lo util/mathutils/project.lo util/mathutils/random.lo util/mathutils/rcmult.lo util/mathutils/rect_transpose.lo util/mathutils/roots.lo util/mathutils/runge-kutta.lo util/mathutils/scale_vector.lo util/mathutils/splines.lo util/mathutils/sum_vector.lo util/mathutils/svd.lo util/mathutils/sym_linsolve.lo util/mathutils/sym_matrix_mult.lo util/mathutils/sym_matrix_vector_mult.lo util/mathutils/sympos_linsolve.lo util/mathutils/test_transpose.lo util/mathutils/testdummy.lo util/mathutils/testgram.lo util/mathutils/testspline.lo util/mathutils/testsvd.lo util/mathutils/testutils.lo util/mathutils/vector_add.lo util/mathutils/vector_dist.lo util/mathutils/zcopy_vector.lo util/mathutils/zdotc.lo util/mathutils/zdotu.lo util/mathutils/zmatrix_add.lo util/mathutils/zmatrix_mult.lo util/mathutils/zmatrix_sub.lo util/mathutils/zmatrix_transpose.lo util/mathutils/zmatrix_vector_mult.lo util/mathutils/znorm.lo util/mathutils/znormsq.lo util/mathutils/zrscale_vector.lo util/mathutils/zscale_vector.lo util/mathutils/zsum_vector.lo util/mathutils/zsym_linsolve.lo libtool: link: ar cru .libs/libmathutils.a util/mathutils/.libs/allocate.o util/mathutils/.libs/cabs.o util/mathutils/.libs/cadd.o util/mathutils/.libs/cconj.o util/mathutils/.libs/cmult.o util/mathutils/.libs/complex_zero.o util/mathutils/.libs/copy_vector.o util/mathutils/.libs/cprob.o util/mathutils/.libs/csub.o util/mathutils/.libs/dotp.o util/mathutils/.libs/eigensystem.o util/mathutils/.libs/expi.o util/mathutils/.libs/gram_schmidt.o util/mathutils/.libs/herm_matrix_mult.o util/mathutils/.libs/herm_matrix_vector_mult.o util/mathutils/.libs/icmult.o util/mathutils/.libs/init.o util/mathutils/.libs/integration.o util/mathutils/.libs/linsolve.o util/mathutils/.libs/matherr.o util/mathutils/.libs/matrix_add.o util/mathutils/.libs/matrix_elt.o util/mathutils/.libs/matrix_mult.o util/mathutils/.libs/matrix_sub.o util/mathutils/.libs/matrix_transpose.o util/mathutils/.libs/matrix_vector_mult.o util/mathutils/.libs/matrixexp.o util/mathutils/.libs/minimum.o util/mathutils/.libs/norm.o util/mathutils/.libs/normsq.o util/mathutils/.libs/project.o util/mathutils/.libs/random.o util/mathutils/.libs/rcmult.o util/mathutils/.libs/rect_transpose.o util/mathutils/.libs/roots.o util/mathutils/.libs/runge-kutta.o util/mathutils/.libs/scale_vector.o util/mathutils/.libs/splines.o util/mathutils/.libs/sum_vector.o util/mathutils/.libs/svd.o util/mathutils/.libs/sym_linsolve.o util/mathutils/.libs/sym_matrix_mult.o util/mathutils/.libs/sym_matrix_vector_mult.o util/mathutils/.libs/sympos_linsolve.o util/mathutils/.libs/test_transpose.o util/mathutils/.libs/testdummy.o util/mathutils/.libs/testgram.o util/mathutils/.libs/testspline.o util/mathutils/.libs/testsvd.o util/mathutils/.libs/testutils.o util/mathutils/.libs/vector_add.o util/mathutils/.libs/vector_dist.o util/mathutils/.libs/zcopy_vector.o util/mathutils/.libs/zdotc.o util/mathutils/.libs/zdotu.o util/mathutils/.libs/zmatrix_add.o util/mathutils/.libs/zmatrix_mult.o util/mathutils/.libs/zmatrix_sub.o util/mathutils/.libs/zmatrix_transpose.o util/mathutils/.libs/zmatrix_vector_mult.o util/mathutils/.libs/znorm.o util/mathutils/.libs/znormsq.o util/mathutils/.libs/zrscale_vector.o util/mathutils/.libs/zscale_vector.o util/mathutils/.libs/zsum_vector.o util/mathutils/.libs/zsym_linsolve.o libtool: link: ranlib .libs/libmathutils.a libtool: link: ( cd ".libs" && rm -f "libmathutils.la" && ln -s "../libmathutils.la" "libmathutils.la" ) make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /bin/sh ../libtool --tag=CXX --mode=link g++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o run_network run_network-network3.o run_network-network.o run_network-run_network.o model/run_network-function.o model/run_network-observable.o model/run_network-rateExpression.o model/run_network-reaction.o model/run_network-simpleSpecies.o model/rateExpressions/run_network-rateElementary.o model/rateExpressions/run_network-rateHill.o model/rateExpressions/run_network-rateMM.o model/rateExpressions/run_network-rateMuParser.o model/rateExpressions/run_network-rateSaturation.o model/reactions/run_network-bioNetGenRxn.o model/reactions/run_network-elementaryRxn.o model/reactions/run_network-functionalRxn.o model/reactions/run_network-hillRxn.o model/reactions/run_network-michaelisMentenRxn.o model/reactions/run_network-saturationRxn.o pla/run_network-PLA.o pla/base/run_network-firingGenerator.o pla/base/run_network-postleapChecker.o pla/base/run_network-rxnClassifier.o pla/base/run_network-tauCalculator.o pla/eRungeKutta/run_network-eRungeKutta_postTC_RC_FG_rbPL.o pla/eRungeKutta/run_network-eRungeKutta_postTC_RC_FG_sbPL.o pla/eRungeKutta/run_network-eRungeKutta_preTC_RC_FG_negPL.o pla/eRungeKutta/run_network-eRungeKutta_preTC_RC_FG_rbPL.o pla/eRungeKutta/run_network-eRungeKutta_preTC_RC_FG_sbPL.o pla/eRungeKutta/base/run_network-eRungeKutta_TC_RC_FG_PL.o pla/eRungeKutta/base/run_network-eRungeKutta_TC_RC_FG_rbPL.o pla/eRungeKutta/base/run_network-eRungeKutta_TC_RC_FG_sbPL.o pla/eRungeKutta/util/run_network-aEff_Calculator.o pla/eRungeKutta/util/run_network-binomialCorrector_RK.o pla/eRungeKutta/util/run_network-butcherTableau.o pla/fEuler/run_network-fEuler_FG.o pla/fEuler/run_network-fEulerPreleapRB_TC.o pla/fEuler/run_network-fEulerPreleapSB_TC.o pla/fEuler/run_network-fEulerRB_PL.o pla/fEuler/run_network-fEulerRB_TC_PL.o pla/fEuler/run_network-fEuler_RC.o pla/fEuler/run_network-fEulerSB_PL.o pla/fEuler/run_network-fEulerSB_TC_PL.o pla/util/run_network-g_Getter.o pla/util/run_network-negPopChecker.o pla/util/run_network-preleap_TC.o pla/util/run_network-rbChecker.o pla/util/run_network-sbChecker.o pla/util/run_network-fixed_TC.o util/run_network-conversion.o util/run_network-rand.o util/MTrand/run_network-mtrand.o util/rand2/run_network-rand2.o util/run_network-misc.o libmathutils.la -lmuparser -lsundials_nvecserial -lsundials_cvode libtool: link: g++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-unused-variable -Wno-unused-function -Wno-unused-but-set-variable -Wno-maybe-uninitialized -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o run_network run_network-network3.o run_network-network.o run_network-run_network.o model/run_network-function.o model/run_network-observable.o model/run_network-rateExpression.o model/run_network-reaction.o model/run_network-simpleSpecies.o model/rateExpressions/run_network-rateElementary.o model/rateExpressions/run_network-rateHill.o model/rateExpressions/run_network-rateMM.o model/rateExpressions/run_network-rateMuParser.o model/rateExpressions/run_network-rateSaturation.o model/reactions/run_network-bioNetGenRxn.o model/reactions/run_network-elementaryRxn.o model/reactions/run_network-functionalRxn.o model/reactions/run_network-hillRxn.o model/reactions/run_network-michaelisMentenRxn.o model/reactions/run_network-saturationRxn.o pla/run_network-PLA.o pla/base/run_network-firingGenerator.o pla/base/run_network-postleapChecker.o pla/base/run_network-rxnClassifier.o pla/base/run_network-tauCalculator.o pla/eRungeKutta/run_network-eRungeKutta_postTC_RC_FG_rbPL.o pla/eRungeKutta/run_network-eRungeKutta_postTC_RC_FG_sbPL.o pla/eRungeKutta/run_network-eRungeKutta_preTC_RC_FG_negPL.o pla/eRungeKutta/run_network-eRungeKutta_preTC_RC_FG_rbPL.o pla/eRungeKutta/run_network-eRungeKutta_preTC_RC_FG_sbPL.o pla/eRungeKutta/base/run_network-eRungeKutta_TC_RC_FG_PL.o pla/eRungeKutta/base/run_network-eRungeKutta_TC_RC_FG_rbPL.o pla/eRungeKutta/base/run_network-eRungeKutta_TC_RC_FG_sbPL.o pla/eRungeKutta/util/run_network-aEff_Calculator.o pla/eRungeKutta/util/run_network-binomialCorrector_RK.o pla/eRungeKutta/util/run_network-butcherTableau.o pla/fEuler/run_network-fEuler_FG.o pla/fEuler/run_network-fEulerPreleapRB_TC.o pla/fEuler/run_network-fEulerPreleapSB_TC.o pla/fEuler/run_network-fEulerRB_PL.o pla/fEuler/run_network-fEulerRB_TC_PL.o pla/fEuler/run_network-fEuler_RC.o pla/fEuler/run_network-fEulerSB_PL.o pla/fEuler/run_network-fEulerSB_TC_PL.o pla/util/run_network-g_Getter.o pla/util/run_network-negPopChecker.o pla/util/run_network-preleap_TC.o pla/util/run_network-rbChecker.o pla/util/run_network-sbChecker.o pla/util/run_network-fixed_TC.o util/run_network-conversion.o util/run_network-rand.o util/MTrand/run_network-mtrand.o util/rand2/run_network-rand2.o util/run_network-misc.o ./.libs/libmathutils.a -lmuparser -lsundials_nvecserial -lsundials_cvode make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' + . /etc/profile.d/modules.sh ++ '[' -z '' ']' ++ '[' -z /usr/share/modulefiles ']' ++ PS_CMD=/usr/bin/ps ++ '[' '!' -x /usr/bin/ps ']' ++ EXPR_CMD=/usr/bin/expr ++ '[' '!' -x /usr/bin/expr ']' ++ BASENAME_CMD=/usr/bin/basename ++ '[' '!' -x /usr/bin/basename ']' +++ /usr/bin/ps -p 66 -ocomm= ++ my_shell=sh +++ /usr/bin/expr sh : '-*\(.*\)' ++ my_shell=sh +++ /usr/bin/basename sh ++ my_shell=sh ++ '[' -f /usr/share/lmod/lmod/init/sh ']' ++ . /usr/share/lmod/lmod/init/sh +++ LMOD_PKG=/usr/share/lmod/lmod +++ LMOD_DIR=/usr/share/lmod/lmod/libexec/ +++ LMOD_CMD=/usr/share/lmod/lmod/libexec/lmod +++ MODULESHOME=/usr/share/lmod/lmod +++ export LMOD_CMD +++ export LMOD_PKG +++ export LMOD_DIR +++ export MODULESHOME +++ export LMOD_DIR ++ unset my_shell PS_CMD EXPR_CMD BASENAME_CMD MODULEPATH_INIT + module unload mpi/openmpi-x86_64 ++ /usr/share/lmod/lmod/libexec/lmod sh unload mpi/openmpi-x86_64 + eval unset '__LMOD_REF_COUNT_LD_LIBRARY_PATH;' unset 'LD_LIBRARY_PATH;' unset '__LMOD_REF_COUNT_LOADEDMODULES;' unset 'LOADEDMODULES;' '__LMOD_REF_COUNT_MANPATH=/usr/share/lmod/lmod/share/man:1;' export '__LMOD_REF_COUNT_MANPATH;' 'MANPATH=/usr/share/lmod/lmod/share/man::;' export 'MANPATH;' 'MODULEPATH=/etc/modulefiles:/usr/share/modulefiles:/usr/share/modulefiles/Linux:/usr/share/modulefiles/Core:/usr/share/lmod/lmod/modulefiles/Core;' export 'MODULEPATH;' unset 'MPI_BIN;' unset 'MPI_COMPILER;' unset 'MPI_FORTRAN_MOD_DIR;' unset 'MPI_HOME;' unset 'MPI_INCLUDE;' unset 'MPI_LIB;' unset 'MPI_MAN;' unset 'MPI_PYTHON2_SITEARCH;' unset 'MPI_PYTHON3_SITEARCH;' unset 'MPI_PYTHON_SITEARCH;' unset 'MPI_SUFFIX;' unset 'MPI_SYSCONFIG;' '__LMOD_REF_COUNT_PATH=/builddir/.local/bin:1\;/builddir/bin:1\;/usr/bin:1\;/bin:1\;/usr/sbin:1\;/sbin:1\;/usr/local/sbin:1;' export '__LMOD_REF_COUNT_PATH;' 'PATH=/builddir/.local/bin:/builddir/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin;' export 'PATH;' '__LMOD_REF_COUNT_PKG_CONFIG_PATH=/usr/lib64/pkgconfig:1\;/usr/share/pkgconfig:1;' export '__LMOD_REF_COUNT_PKG_CONFIG_PATH;' 'PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig;' export 'PKG_CONFIG_PATH;' unset '__LMOD_REF_COUNT__LMFILES_;' unset '_LMFILES_;' '_ModuleTable001_=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;' export '_ModuleTable001_;' '_ModuleTable002_=cmUvbG1vZC9sbW9kL21vZHVsZWZpbGVzL0NvcmUiLH0=;' export '_ModuleTable002_;' '_ModuleTable_Sz_=2;' export '_ModuleTable_Sz_;' ++ unset __LMOD_REF_COUNT_LD_LIBRARY_PATH ++ unset LD_LIBRARY_PATH ++ unset __LMOD_REF_COUNT_LOADEDMODULES ++ unset LOADEDMODULES ++ __LMOD_REF_COUNT_MANPATH=/usr/share/lmod/lmod/share/man:1 ++ export __LMOD_REF_COUNT_MANPATH ++ MANPATH=/usr/share/lmod/lmod/share/man:: ++ export MANPATH ++ MODULEPATH=/etc/modulefiles:/usr/share/modulefiles:/usr/share/modulefiles/Linux:/usr/share/modulefiles/Core:/usr/share/lmod/lmod/modulefiles/Core ++ export MODULEPATH ++ unset MPI_BIN ++ unset MPI_COMPILER ++ unset MPI_FORTRAN_MOD_DIR ++ unset MPI_HOME ++ unset MPI_INCLUDE ++ unset MPI_LIB ++ unset MPI_MAN ++ unset MPI_PYTHON2_SITEARCH ++ unset MPI_PYTHON3_SITEARCH ++ unset MPI_PYTHON_SITEARCH ++ unset MPI_SUFFIX ++ unset MPI_SYSCONFIG ++ __LMOD_REF_COUNT_PATH='/builddir/.local/bin:1;/builddir/bin:1;/usr/bin:1;/bin:1;/usr/sbin:1;/sbin:1;/usr/local/sbin:1' ++ export __LMOD_REF_COUNT_PATH ++ PATH=/builddir/.local/bin:/builddir/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ __LMOD_REF_COUNT_PKG_CONFIG_PATH='/usr/lib64/pkgconfig:1;/usr/share/pkgconfig:1' ++ export __LMOD_REF_COUNT_PKG_CONFIG_PATH ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ unset __LMOD_REF_COUNT__LMFILES_ ++ unset _LMFILES_ ++ _ModuleTable001_=X01vZHVsZVRhYmxlXz17WyJNVHZlcnNpb24iXT0zLFsiY19yZWJ1aWxkVGltZSJdPWZhbHNlLFsiY19zaG9ydFRpbWUiXT1mYWxzZSxkZXB0aFQ9e30sZmFtaWx5PXt9LG1UPXt9LG1wYXRoQT17Ii9ldGMvbW9kdWxlZmlsZXMiLCIvdXNyL3NoYXJlL21vZHVsZWZpbGVzIiwiL3Vzci9zaGFyZS9tb2R1bGVmaWxlcy9MaW51eCIsIi91c3Ivc2hhcmUvbW9kdWxlZmlsZXMvQ29yZSIsIi91c3Ivc2hhcmUvbG1vZC9sbW9kL21vZHVsZWZpbGVzL0NvcmUiLH0sWyJzeXN0ZW1CYXNlTVBBVEgiXT0iL2V0Yy9tb2R1bGVmaWxlczovdXNyL3NoYXJlL21vZHVsZWZpbGVzOi91c3Ivc2hhcmUvbW9kdWxlZmlsZXMvTGludXg6L3Vzci9zaGFyZS9tb2R1bGVmaWxlcy9Db3JlOi91c3Ivc2hh ++ export _ModuleTable001_ ~/build/BUILD/bionetgen-BioNetGen-2.4.0 ++ _ModuleTable002_=cmUvbG1vZC9sbW9kL21vZHVsZWZpbGVzL0NvcmUiLH0= ++ export _ModuleTable002_ ++ _ModuleTable_Sz_=2 ++ export _ModuleTable_Sz_ + popd + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.RryVzV + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64 ++ dirname /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64 + cd bionetgen-BioNetGen-2.4.0 + /usr/bin/make install DESTDIR=/builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64 'INSTALL=/usr/bin/install -p' -C bng2/Network3/src make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make[1]: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' /usr/bin/mkdir -p '/builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/bin' /bin/sh ../libtool --mode=install /usr/bin/install -p run_network '/builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/bin' libtool: install: /usr/bin/install -p run_network /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/bin/run_network make[1]: Nothing to be done for 'install-data-am'. make[1]: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.4.0/bng2/Network3/src' + mkdir -vp /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/perl5/vendor_perl/BioNetGen mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share' mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/perl5' mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/perl5/vendor_perl' mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/perl5/vendor_perl/BioNetGen' + cp -r bng2/Perl2 /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/perl5/vendor_perl/BioNetGen/ + cp bng2/BNG2.pl /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/perl5/vendor_perl/BioNetGen/ + /usr/lib/rpm/find-debuginfo.sh -j2 --strict-build-id -m -i --build-id-seed 2.4.0-3.fc30 --unique-debug-suffix -2.4.0-3.fc30.x86_64 --unique-debug-src-base bionetgen-2.4.0-3.fc30.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/bionetgen-BioNetGen-2.4.0 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/bin/run_network extracting debug info from /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/bin/run_network /usr/lib/rpm/sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match. 967 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig /sbin/ldconfig: Warning: ignoring configuration file that cannot be opened: /etc/ld.so.conf: No such file or directory + /usr/lib/rpm/brp-compress + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1 0 + /usr/lib/rpm/brp-python-hardlink + /usr/lib/rpm/redhat/brp-mangle-shebangs Processing files: bionetgen-2.4.0-3.fc30.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.pUD9iB + umask 022 + cd /builddir/build/BUILD + cd bionetgen-BioNetGen-2.4.0 + DOCDIR=/builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/doc/bionetgen + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/doc/bionetgen + cp -pr README.md /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/doc/bionetgen + cp -pr bng2/CREDITS.txt /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/doc/bionetgen + cp -pr bng2/CHANGES.txt /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/doc/bionetgen + cp -pr bng2/VERSION /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/doc/bionetgen + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.XFd44g + umask 022 + cd /builddir/build/BUILD + cd bionetgen-BioNetGen-2.4.0 + LICENSEDIR=/builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/licenses/bionetgen + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/licenses/bionetgen + cp -pr LICENSE /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64/usr/share/licenses/bionetgen + exit 0 Provides: bionetgen = 2.4.0-3.fc30 bionetgen(x86-64) = 2.4.0-3.fc30 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libmuparser.so.2()(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) libsundials_cvode.so.3()(64bit) libsundials_nvecserial.so.3()(64bit) rtld(GNU_HASH) Processing files: bionetgen-perl-2.4.0-3.fc30.noarch Provides: bionetgen-perl = 2.4.0-3.fc30 perl(Viz) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/perl perl(Carp) perl(Class::Struct) perl(Config) perl(Cwd) perl(Data::Dumper) perl(Exporter) perl(File::Basename) perl(File::Path) perl(File::Spec) perl(File::Spec::Win32) perl(FindBin) perl(Getopt::Long) perl(IO::Handle) perl(IO::Select) perl(IPC::Open3) perl(List::Util) perl(Math::Trig) perl(POSIX) perl(Scalar::Util) perl(Storable) perl(Symbol) perl(constant) perl(lib) perl(strict) perl(vars) perl(warnings) Processing files: bionetgen-debugsource-2.4.0-3.fc30.x86_64 Provides: bionetgen-debugsource = 2.4.0-3.fc30 bionetgen-debugsource(x86-64) = 2.4.0-3.fc30 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: bionetgen-debuginfo-2.4.0-3.fc30.x86_64 Provides: bionetgen-debuginfo = 2.4.0-3.fc30 bionetgen-debuginfo(x86-64) = 2.4.0-3.fc30 debuginfo(build-id) = 8c316651b8aea8db49ebca98544b156e22a750c6 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: bionetgen-debugsource(x86-64) = 2.4.0-3.fc30 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64 Wrote: /builddir/build/RPMS/bionetgen-2.4.0-3.fc30.x86_64.rpm Wrote: /builddir/build/RPMS/bionetgen-perl-2.4.0-3.fc30.noarch.rpm Wrote: /builddir/build/RPMS/bionetgen-debugsource-2.4.0-3.fc30.x86_64.rpm Wrote: /builddir/build/RPMS/bionetgen-debuginfo-2.4.0-3.fc30.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.ZB9106 + umask 022 + cd /builddir/build/BUILD + cd bionetgen-BioNetGen-2.4.0 + /usr/bin/rm -rf /builddir/build/BUILDROOT/bionetgen-2.4.0-3.fc30.x86_64 + exit 0 Finish: rpmbuild bionetgen-2.4.0-3.fc30.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/829451-fedora-rawhide-x86_64-1543191808.340295/root/var/log/dnf.log /var/lib/mock/829451-fedora-rawhide-x86_64-1543191808.340295/root/var/log/dnf.librepo.log /var/lib/mock/829451-fedora-rawhide-x86_64-1543191808.340295/root/var/log/dnf.rpm.log Finish: build phase for bionetgen-2.4.0-3.fc30.src.rpm INFO: Done(/var/lib/copr-rpmbuild/results/bionetgen-2.4.0-3.fc30.src.rpm) Config(child) 1 minutes 59 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run