DC-Build-Header: hhsuite 2.0.16-1 / 2013-07-17 02:01:39 +0000 DC-Task: source:hhsuite version:2.0.16-1 architecture:any chroot:unstable esttime:155 logfile:/tmp/hhsuite_2.0.16-1_unstable_clang.log modes:binary-only:clang DC-Sbuild-call: su user -c 'sbuild -n --apt-update -d unstable -v --chroot-setup-commands=/tmp/switch-to-clang --append-to-version "clang1" --maintainer "Lucas Nussbaum " --uploader "Lucas Nussbaum " hhsuite_2.0.16-1' sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on ip-10-28-173-126.ec2.internal ╔══════════════════════════════════════════════════════════════════════════════╗ ║ hhsuite 2.0.16-1clang1 (amd64) 17 Jul 2013 02:01 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: hhsuite Version: 2.0.16-1clang1 Source Version: 2.0.16-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/hhsuite-uXzdeB/hhsuite-2.0.16' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/hhsuite-uXzdeB' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/unstable-amd64-sbuild-03f2ea0f-d14e-4422-b868-f9681c40f68b' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Get:1 http://localhost:9999 unstable InRelease [204 kB] Get:2 http://localhost:9999 unstable/main Sources/DiffIndex [7876 B] Get:3 http://localhost:9999 unstable/main amd64 Packages/DiffIndex [7876 B] Get:4 http://localhost:9999 unstable/main Translation-en/DiffIndex [7876 B] Get:5 http://localhost:9999 unstable/main 2013-07-13-2032.15.pdiff [23.1 kB] Get:6 http://localhost:9999 unstable/main amd64 2013-07-13-2032.15.pdiff [16.9 kB] Get:7 http://localhost:9999 unstable/main 2013-07-13-2032.15.pdiff [23.1 kB] Get:8 http://localhost:9999 unstable/main 2013-07-13-2032.15.pdiff [1809 B] Get:9 http://localhost:9999 unstable/main amd64 2013-07-13-2032.15.pdiff [16.9 kB] Get:10 http://localhost:9999 unstable/main 2013-07-14-0231.07.pdiff [12.9 kB] Get:11 http://localhost:9999 unstable/main 2013-07-13-2032.15.pdiff [1809 B] Get:12 http://localhost:9999 unstable/main amd64 2013-07-14-0231.07.pdiff [14.9 kB] Get:13 http://localhost:9999 unstable/main 2013-07-14-0231.07.pdiff [12.9 kB] Get:14 http://localhost:9999 unstable/main 2013-07-14-0231.07.pdiff [1384 B] Get:15 http://localhost:9999 unstable/main amd64 2013-07-14-0231.07.pdiff [14.9 kB] Get:16 http://localhost:9999 unstable/main 2013-07-14-0832.16.pdiff [4670 B] Get:17 http://localhost:9999 unstable/main 2013-07-14-0231.07.pdiff [1384 B] Get:18 http://localhost:9999 unstable/main amd64 2013-07-14-0832.16.pdiff [1624 B] Get:19 http://localhost:9999 unstable/main 2013-07-14-0832.16.pdiff [4670 B] Get:20 http://localhost:9999 unstable/main 2013-07-14-0832.16.pdiff [337 B] Get:21 http://localhost:9999 unstable/main amd64 2013-07-14-0832.16.pdiff [1624 B] Get:22 http://localhost:9999 unstable/main 2013-07-14-1431.18.pdiff [11.4 kB] Get:23 http://localhost:9999 unstable/main 2013-07-14-0832.16.pdiff [337 B] Get:24 http://localhost:9999 unstable/main amd64 2013-07-14-1431.18.pdiff [8223 B] Get:25 http://localhost:9999 unstable/main 2013-07-14-1431.18.pdiff [11.4 kB] Get:26 http://localhost:9999 unstable/main 2013-07-14-1431.18.pdiff [887 B] Get:27 http://localhost:9999 unstable/main amd64 2013-07-14-1431.18.pdiff [8223 B] Get:28 http://localhost:9999 unstable/main 2013-07-14-2031.21.pdiff [9038 B] Get:29 http://localhost:9999 unstable/main 2013-07-14-1431.18.pdiff [887 B] Get:30 http://localhost:9999 unstable/main amd64 2013-07-14-2031.21.pdiff [9955 B] Get:31 http://localhost:9999 unstable/main 2013-07-14-2031.21.pdiff [9038 B] Get:32 http://localhost:9999 unstable/main 2013-07-14-2031.21.pdiff [2736 B] Get:33 http://localhost:9999 unstable/main amd64 2013-07-14-2031.21.pdiff [9955 B] Get:34 http://localhost:9999 unstable/main 2013-07-15-0229.01.pdiff [9715 B] Get:35 http://localhost:9999 unstable/main 2013-07-14-2031.21.pdiff [2736 B] Get:36 http://localhost:9999 unstable/main amd64 2013-07-15-0229.01.pdiff [12.7 kB] Get:37 http://localhost:9999 unstable/main 2013-07-15-0229.01.pdiff [9715 B] Get:38 http://localhost:9999 unstable/main 2013-07-15-0229.01.pdiff [2239 B] Get:39 http://localhost:9999 unstable/main amd64 2013-07-15-0229.01.pdiff [12.7 kB] Get:40 http://localhost:9999 unstable/main 2013-07-15-0830.19.pdiff [3273 B] Get:41 http://localhost:9999 unstable/main 2013-07-15-0229.01.pdiff [2239 B] Get:42 http://localhost:9999 unstable/main amd64 2013-07-15-0830.19.pdiff [3964 B] Get:43 http://localhost:9999 unstable/main 2013-07-15-0830.19.pdiff [3273 B] Get:44 http://localhost:9999 unstable/main 2013-07-15-0830.19.pdiff [1357 B] Get:45 http://localhost:9999 unstable/main amd64 2013-07-15-0830.19.pdiff [3964 B] Get:46 http://localhost:9999 unstable/main 2013-07-15-1432.36.pdiff [5326 B] Get:47 http://localhost:9999 unstable/main 2013-07-15-0830.19.pdiff [1357 B] Get:48 http://localhost:9999 unstable/main amd64 2013-07-15-1432.36.pdiff [9809 B] Get:49 http://localhost:9999 unstable/main 2013-07-15-1432.36.pdiff [5326 B] Get:50 http://localhost:9999 unstable/main 2013-07-15-1432.36.pdiff [322 B] Get:51 http://localhost:9999 unstable/main amd64 2013-07-15-1432.36.pdiff [9809 B] Get:52 http://localhost:9999 unstable/main 2013-07-15-2031.50.pdiff [12.2 kB] Get:53 http://localhost:9999 unstable/main 2013-07-15-1432.36.pdiff [322 B] Get:54 http://localhost:9999 unstable/main amd64 2013-07-15-2031.50.pdiff [24.4 kB] Get:55 http://localhost:9999 unstable/main 2013-07-15-2031.50.pdiff [12.2 kB] Get:56 http://localhost:9999 unstable/main 2013-07-15-2031.50.pdiff [537 B] Get:57 http://localhost:9999 unstable/main amd64 2013-07-15-2031.50.pdiff [24.4 kB] Get:58 http://localhost:9999 unstable/main 2013-07-16-0233.12.pdiff [14.8 kB] Get:59 http://localhost:9999 unstable/main 2013-07-15-2031.50.pdiff [537 B] Get:60 http://localhost:9999 unstable/main amd64 2013-07-16-0233.12.pdiff [49.5 kB] Get:61 http://localhost:9999 unstable/main 2013-07-16-0233.12.pdiff [14.8 kB] Get:62 http://localhost:9999 unstable/main 2013-07-16-0233.12.pdiff [3247 B] Get:63 http://localhost:9999 unstable/main amd64 2013-07-16-0233.12.pdiff [49.5 kB] Get:64 http://localhost:9999 unstable/main 2013-07-16-0834.41.pdiff [7447 B] Get:65 http://localhost:9999 unstable/main 2013-07-16-0233.12.pdiff [3247 B] Get:66 http://localhost:9999 unstable/main amd64 2013-07-16-0834.41.pdiff [4493 B] Get:67 http://localhost:9999 unstable/main 2013-07-16-0834.41.pdiff [7447 B] Get:68 http://localhost:9999 unstable/main 2013-07-16-0834.41.pdiff [5852 B] Get:69 http://localhost:9999 unstable/main amd64 2013-07-16-0834.41.pdiff [4493 B] Get:70 http://localhost:9999 unstable/main 2013-07-16-1433.54.pdiff [21.2 kB] Get:71 http://localhost:9999 unstable/main 2013-07-16-0834.41.pdiff [5852 B] Get:72 http://localhost:9999 unstable/main amd64 2013-07-16-1433.54.pdiff [19.3 kB] Get:73 http://localhost:9999 unstable/main 2013-07-16-1433.54.pdiff [21.2 kB] Get:74 http://localhost:9999 unstable/main 2013-07-16-1433.54.pdiff [1941 B] Get:75 http://localhost:9999 unstable/main amd64 2013-07-16-1433.54.pdiff [19.3 kB] Get:76 http://localhost:9999 unstable/main 2013-07-16-2046.09.pdiff [19.4 kB] Get:77 http://localhost:9999 unstable/main 2013-07-16-1433.54.pdiff [1941 B] Get:78 http://localhost:9999 unstable/main amd64 2013-07-16-2046.09.pdiff [18.4 kB] Get:79 http://localhost:9999 unstable/main 2013-07-16-2046.09.pdiff [19.4 kB] Get:80 http://localhost:9999 unstable/main 2013-07-16-2046.09.pdiff [465 B] Get:81 http://localhost:9999 unstable/main amd64 2013-07-16-2046.09.pdiff [18.4 kB] Get:82 http://localhost:9999 unstable/main 2013-07-16-2046.09.pdiff [465 B] Fetched 600 kB in 41s (14.3 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: cpp-4.7 gcc-4.7 gcc-4.7-base initscripts libgcc-4.7-dev sysv-rc sysvinit sysvinit-utils 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 14.2 MB of archives. After this operation, 18.4 kB disk space will be freed. Get:1 http://localhost:9999/debian/ unstable/main sysvinit amd64 2.88dsf-42 [134 kB] Get:2 http://localhost:9999/debian/ unstable/main sysv-rc all 2.88dsf-42 [80.4 kB] Get:3 http://localhost:9999/debian/ unstable/main sysvinit-utils amd64 2.88dsf-42 [103 kB] Get:4 http://localhost:9999/debian/ unstable/main initscripts amd64 2.88dsf-42 [87.1 kB] Get:5 http://localhost:9999/debian/ unstable/main gcc-4.7 amd64 4.7.3-6 [5819 kB] Get:6 http://localhost:9999/debian/ unstable/main cpp-4.7 amd64 4.7.3-6 [5385 kB] Get:7 http://localhost:9999/debian/ unstable/main libgcc-4.7-dev amd64 4.7.3-6 [2465 kB] Get:8 http://localhost:9999/debian/ unstable/main gcc-4.7-base amd64 4.7.3-6 [149 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 14.2 MB in 0s (28.6 MB/s) (Reading database ... 13844 files and directories currently installed.) Preparing to replace sysvinit 2.88dsf-41 (using .../sysvinit_2.88dsf-42_amd64.deb) ... Unpacking replacement sysvinit ... Setting up sysvinit (2.88dsf-42) ... Not restarting sysvinit (Reading database ... 13844 files and directories currently installed.) Preparing to replace sysv-rc 2.88dsf-41 (using .../sysv-rc_2.88dsf-42_all.deb) ... Unpacking replacement sysv-rc ... Preparing to replace sysvinit-utils 2.88dsf-41 (using .../sysvinit-utils_2.88dsf-42_amd64.deb) ... Unpacking replacement sysvinit-utils ... Setting up sysvinit-utils (2.88dsf-42) ... Setting up sysv-rc (2.88dsf-42) ... (Reading database ... 13844 files and directories currently installed.) Preparing to replace initscripts 2.88dsf-41 (using .../initscripts_2.88dsf-42_amd64.deb) ... Removing unmodified and obsolete conffile /etc/init.d/mtab.sh ... Unpacking replacement initscripts ... Setting up initscripts (2.88dsf-42) ... Installing new version of config file /etc/init.d/bootmisc.sh ... Installing new version of config file /etc/init.d/checkfs.sh ... Installing new version of config file /etc/init.d/checkroot.sh ... Installing new version of config file /etc/init.d/checkroot-bootclean.sh ... Installing new version of config file /etc/init.d/mountdevsubfs.sh ... Installing new version of config file /etc/init.d/mountkernfs.sh ... Installing new version of config file /etc/init.d/rmnologin ... Installing new version of config file /etc/network/if-up.d/mountnfs ... (Reading database ... 13843 files and directories currently installed.) Preparing to replace gcc-4.7 4.7.3-5 (using .../gcc-4.7_4.7.3-6_amd64.deb) ... Unpacking replacement gcc-4.7 ... Preparing to replace cpp-4.7 4.7.3-5 (using .../cpp-4.7_4.7.3-6_amd64.deb) ... Unpacking replacement cpp-4.7 ... Preparing to replace libgcc-4.7-dev:amd64 4.7.3-5 (using .../libgcc-4.7-dev_4.7.3-6_amd64.deb) ... Unpacking replacement libgcc-4.7-dev:amd64 ... Preparing to replace gcc-4.7-base:amd64 4.7.3-5 (using .../gcc-4.7-base_4.7.3-6_amd64.deb) ... Unpacking replacement gcc-4.7-base:amd64 ... Setting up gcc-4.7-base:amd64 (4.7.3-6) ... Setting up cpp-4.7 (4.7.3-6) ... Setting up libgcc-4.7-dev:amd64 (4.7.3-6) ... Setting up gcc-4.7 (4.7.3-6) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'hhsuite' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/debian-med/trunk/packages/hhsuite/trunk/ Need to get 4350 kB of source archives. Get:1 http://localhost:9999/debian/ unstable/main hhsuite 2.0.16-1 (dsc) [2131 B] Get:2 http://localhost:9999/debian/ unstable/main hhsuite 2.0.16-1 (tar) [4338 kB] Get:3 http://localhost:9999/debian/ unstable/main hhsuite 2.0.16-1 (diff) [10.4 kB] Fetched 4350 kB in 0s (9089 kB/s) Download complete and in download only mode Check arch ────────── ┌──────────────────────────────────────────────────────────────────────────────┐ │ Chroot Setup Commands │ └──────────────────────────────────────────────────────────────────────────────┘ /tmp/switch-to-clang ──────────────────── + echo 'Entering customization script...' Entering customization script... + echo 'Install of clang' Install of clang + apt-get update Hit http://localhost:9999 unstable InRelease Hit http://localhost:9999 unstable/main Sources/DiffIndex Hit http://localhost:9999 unstable/main amd64 Packages/DiffIndex Hit http://localhost:9999 unstable/main Translation-en/DiffIndex Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-3.3 Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: libclang-common-3.3-dev libclang1-3.3 libffi6 libllvm3.3 libobjc-4.7-dev libobjc4 libstdc++6-4.7-dev Suggested packages: libstdc++6-4.7-doc Recommended packages: llvm-3.3-dev python The following NEW packages will be installed: clang-3.3 libclang-common-3.3-dev libclang1-3.3 libffi6 libllvm3.3 libobjc-4.7-dev libobjc4 libstdc++6-4.7-dev 0 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. Need to get 27.2 MB of archives. After this operation, 80.8 MB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libffi6 amd64 3.0.13-4 [21.6 kB] Get:2 http://localhost:9999/debian/ unstable/main libllvm3.3 amd64 1:3.3-3 [8575 kB] Get:3 http://localhost:9999/debian/ unstable/main libobjc4 amd64 4.8.1-6 [160 kB] Get:4 http://localhost:9999/debian/ unstable/main libstdc++6-4.7-dev amd64 4.7.3-6 [1694 kB] Get:5 http://localhost:9999/debian/ unstable/main libobjc-4.7-dev amd64 4.7.3-6 [719 kB] Get:6 http://localhost:9999/debian/ unstable/main libclang-common-3.3-dev amd64 1:3.3-3 [574 kB] Get:7 http://localhost:9999/debian/ unstable/main libclang1-3.3 amd64 1:3.3-3 [4579 kB] Get:8 http://localhost:9999/debian/ unstable/main clang-3.3 amd64 1:3.3-3 [10.9 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 27.2 MB in 0s (29.2 MB/s) Selecting previously unselected package libffi6:amd64. (Reading database ... 13843 files and directories currently installed.) Unpacking libffi6:amd64 (from .../libffi6_3.0.13-4_amd64.deb) ... Selecting previously unselected package libllvm3.3:amd64. Unpacking libllvm3.3:amd64 (from .../libllvm3.3_1%3a3.3-3_amd64.deb) ... Selecting previously unselected package libobjc4:amd64. Unpacking libobjc4:amd64 (from .../libobjc4_4.8.1-6_amd64.deb) ... Selecting previously unselected package libstdc++6-4.7-dev:amd64. Unpacking libstdc++6-4.7-dev:amd64 (from .../libstdc++6-4.7-dev_4.7.3-6_amd64.deb) ... Selecting previously unselected package libobjc-4.7-dev:amd64. Unpacking libobjc-4.7-dev:amd64 (from .../libobjc-4.7-dev_4.7.3-6_amd64.deb) ... Selecting previously unselected package libclang-common-3.3-dev. Unpacking libclang-common-3.3-dev (from .../libclang-common-3.3-dev_1%3a3.3-3_amd64.deb) ... Selecting previously unselected package libclang1-3.3. Unpacking libclang1-3.3 (from .../libclang1-3.3_1%3a3.3-3_amd64.deb) ... Selecting previously unselected package clang-3.3. Unpacking clang-3.3 (from .../clang-3.3_1%3a3.3-3_amd64.deb) ... Setting up libffi6:amd64 (3.0.13-4) ... Setting up libllvm3.3:amd64 (1:3.3-3) ... Setting up libobjc4:amd64 (4.8.1-6) ... Setting up libstdc++6-4.7-dev:amd64 (4.7.3-6) ... Setting up libobjc-4.7-dev:amd64 (4.7.3-6) ... Setting up libclang-common-3.3-dev (1:3.3-3) ... Setting up libclang1-3.3 (1:3.3-3) ... Setting up clang-3.3 (1:3.3-3) ... Processing triggers for libc-bin ... + echo 'Replace gcc, g++ & cpp by clang' Replace gcc, g++ & cpp by clang + VERSIONS='4.6 4.7 4.8' + cd /usr/bin + for VERSION in '$VERSIONS' + rm -f g++-4.6 gcc-4.6 cpp-4.6 + ln -s clang++ g++-4.6 + ln -s clang gcc-4.6 + ln -s clang cpp-4.6 + for VERSION in '$VERSIONS' + rm -f g++-4.7 gcc-4.7 cpp-4.7 + ln -s clang++ g++-4.7 + ln -s clang gcc-4.7 + ln -s clang cpp-4.7 + for VERSION in '$VERSIONS' + rm -f g++-4.8 gcc-4.8 cpp-4.8 + ln -s clang++ g++-4.8 + ln -s clang gcc-4.8 + ln -s clang cpp-4.8 + cd - /«BUILDDIR» + echo 'Block the installation of new gcc version' Block the installation of new gcc version + dpkg --set-selections + echo 'gcc-4.6 hold' + dpkg --set-selections + echo 'cpp-4.6 hold' + dpkg --set-selections + echo 'g++-4.6 hold' + dpkg --set-selections + echo 'gcc-4.7 hold' + dpkg --set-selections + echo 'cpp-4.7 hold' + dpkg --set-selections + echo 'g++-4.7 hold' + dpkg --set-selections + echo 'gcc-4.8 hold' + dpkg --set-selections + echo 'cpp-4.8 hold' + dpkg --set-selections + echo 'g++-4.8 hold' + echo 'Check if gcc, g++ & cpp are actually clang' Check if gcc, g++ & cpp are actually clang + grep clang + gcc --version + grep clang + cpp --version + grep clang + g++ --version I: Finished running '/tmp/switch-to-clang'. Finished processing commands. ──────────────────────────────────────────────────────────────────────────────── Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-27hm_O/apt_archive/sbuild-build-depends-core-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install core build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/710 B of archives. After this operation, 0 B of additional disk space will be used. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14698 files and directories currently installed.) Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8.0.0), libffindex0-dev (>= 0.9.6.1), help2man, libpng12-dev Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8.0.0), libffindex0-dev (>= 0.9.6.1), help2man, libpng12-dev dpkg-deb: building package `sbuild-build-depends-hhsuite-dummy' in `/«BUILDDIR»/resolver-dI1ltS/apt_archive/sbuild-build-depends-hhsuite-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install hhsuite build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils debhelper file gettext gettext-base groff-base help2man intltool-debian libasprintf0c2 libcroco3 libffindex0 libffindex0-dev libglib2.0-0 libmagic1 libpipeline1 libpng12-0 libpng12-dev libunistring0 libxml2 man-db po-debconf zlib1g-dev Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser libmail-box-perl Recommended packages: curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils debhelper file gettext gettext-base groff-base help2man intltool-debian libasprintf0c2 libcroco3 libffindex0 libffindex0-dev libglib2.0-0 libmagic1 libpipeline1 libpng12-0 libpng12-dev libunistring0 libxml2 man-db po-debconf sbuild-build-depends-hhsuite-dummy zlib1g-dev 0 upgraded, 23 newly installed, 0 to remove and 0 not upgraded. Need to get 9638 kB/9638 kB of archives. After this operation, 26.6 MB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libpipeline1 amd64 1.2.4-1 [41.0 kB] Get:2 http://localhost:9999/debian/ unstable/main groff-base amd64 1.22.2-3 [747 kB] Get:3 http://localhost:9999/debian/ unstable/main bsdmainutils amd64 9.0.5 [211 kB] Get:4 http://localhost:9999/debian/ unstable/main man-db amd64 2.6.5-2 [976 kB] Get:5 http://localhost:9999/debian/ unstable/main libasprintf0c2 amd64 0.18.3-1 [29.6 kB] Get:6 http://localhost:9999/debian/ unstable/main libmagic1 amd64 1:5.14-2 [216 kB] Get:7 http://localhost:9999/debian/ unstable/main libxml2 amd64 2.9.1+dfsg1-2 [911 kB] Get:8 http://localhost:9999/debian/ unstable/main libglib2.0-0 amd64 2.36.3-3 [2048 kB] Get:9 http://localhost:9999/debian/ unstable/main libcroco3 amd64 0.6.8-2 [133 kB] Get:10 http://localhost:9999/debian/ unstable/main libpng12-0 amd64 1.2.49-4 [190 kB] Get:11 http://localhost:9999/debian/ unstable/main libunistring0 amd64 0.9.3-5 [434 kB] Get:12 http://localhost:9999/debian/ unstable/main file amd64 1:5.14-2 [54.0 kB] Get:13 http://localhost:9999/debian/ unstable/main gettext-base amd64 0.18.3-1 [161 kB] Get:14 http://localhost:9999/debian/ unstable/main gettext amd64 0.18.3-1 [1898 kB] Get:15 http://localhost:9999/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:16 http://localhost:9999/debian/ unstable/main po-debconf all 1.0.16+nmu2 [224 kB] Get:17 http://localhost:9999/debian/ unstable/main debhelper all 9.20130630 [710 kB] Get:18 http://localhost:9999/debian/ unstable/main help2man amd64 1.43.3 [105 kB] Get:19 http://localhost:9999/debian/ unstable/main zlib1g-dev amd64 1:1.2.8.dfsg-1 [217 kB] Get:20 http://localhost:9999/debian/ unstable/main libpng12-dev amd64 1.2.49-4 [267 kB] Get:21 http://localhost:9999/debian/ unstable/main libffindex0 amd64 0.9.9.1-1 [16.9 kB] Get:22 http://localhost:9999/debian/ unstable/main libffindex0-dev amd64 0.9.9.1-1 [16.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9638 kB in 0s (17.3 MB/s) Selecting previously unselected package libpipeline1:amd64. (Reading database ... 14698 files and directories currently installed.) Unpacking libpipeline1:amd64 (from .../libpipeline1_1.2.4-1_amd64.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.22.2-3_amd64.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_9.0.5_amd64.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.5-2_amd64.deb) ... Selecting previously unselected package libasprintf0c2:amd64. Unpacking libasprintf0c2:amd64 (from .../libasprintf0c2_0.18.3-1_amd64.deb) ... Selecting previously unselected package libmagic1:amd64. Unpacking libmagic1:amd64 (from .../libmagic1_1%3a5.14-2_amd64.deb) ... Selecting previously unselected package libxml2:amd64. Unpacking libxml2:amd64 (from .../libxml2_2.9.1+dfsg1-2_amd64.deb) ... Selecting previously unselected package libglib2.0-0:amd64. Unpacking libglib2.0-0:amd64 (from .../libglib2.0-0_2.36.3-3_amd64.deb) ... Selecting previously unselected package libcroco3:amd64. Unpacking libcroco3:amd64 (from .../libcroco3_0.6.8-2_amd64.deb) ... Selecting previously unselected package libpng12-0:amd64. Unpacking libpng12-0:amd64 (from .../libpng12-0_1.2.49-4_amd64.deb) ... Selecting previously unselected package libunistring0:amd64. Unpacking libunistring0:amd64 (from .../libunistring0_0.9.3-5_amd64.deb) ... Selecting previously unselected package file. Unpacking file (from .../file_1%3a5.14-2_amd64.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.3-1_amd64.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.3-1_amd64.deb) ... Selecting previously unselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously unselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2_all.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_9.20130630_all.deb) ... Selecting previously unselected package help2man. Unpacking help2man (from .../help2man_1.43.3_amd64.deb) ... Selecting previously unselected package zlib1g-dev:amd64. Unpacking zlib1g-dev:amd64 (from .../zlib1g-dev_1%3a1.2.8.dfsg-1_amd64.deb) ... Selecting previously unselected package libpng12-dev. Unpacking libpng12-dev (from .../libpng12-dev_1.2.49-4_amd64.deb) ... Selecting previously unselected package libffindex0. Unpacking libffindex0 (from .../libffindex0_0.9.9.1-1_amd64.deb) ... Selecting previously unselected package libffindex0-dev. Unpacking libffindex0-dev (from .../libffindex0-dev_0.9.9.1-1_amd64.deb) ... Selecting previously unselected package sbuild-build-depends-hhsuite-dummy. Unpacking sbuild-build-depends-hhsuite-dummy (from .../sbuild-build-depends-hhsuite-dummy.deb) ... Setting up libpipeline1:amd64 (1.2.4-1) ... Setting up groff-base (1.22.2-3) ... Setting up bsdmainutils (9.0.5) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up man-db (2.6.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libasprintf0c2:amd64 (0.18.3-1) ... Setting up libmagic1:amd64 (1:5.14-2) ... Setting up libxml2:amd64 (2.9.1+dfsg1-2) ... Setting up libglib2.0-0:amd64 (2.36.3-3) ... No schema files found: doing nothing. Setting up libcroco3:amd64 (0.6.8-2) ... Setting up libpng12-0:amd64 (1.2.49-4) ... Setting up libunistring0:amd64 (0.9.3-5) ... Setting up file (1:5.14-2) ... Setting up gettext-base (0.18.3-1) ... Setting up gettext (0.18.3-1) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20130630) ... Setting up help2man (1.43.3) ... Setting up zlib1g-dev:amd64 (1:1.2.8.dfsg-1) ... Setting up libpng12-dev (1.2.49-4) ... Setting up libffindex0 (0.9.9.1-1) ... Setting up libffindex0-dev (0.9.9.1-1) ... Setting up sbuild-build-depends-hhsuite-dummy (0.invalid.0) ... Processing triggers for libc-bin ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 2.6.32-5-xen-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.23.52.20130620-1 dpkg-dev_1.16.10 g++-4.6_4.6.4-4 g++-4.8_4.8.1-6 gcc-4.6_4.6.4-4 gcc-4.7_4.7.3-6 gcc-4.8_4.8.1-6 libc6-dev_2.17-7 libstdc++-4.8-dev_4.8.1-6 libstdc++6_4.8.1-6 libstdc++6-4.6-dev_4.6.4-4 libstdc++6-4.7-dev_4.7.3-6 linux-libc-dev_3.9.8-1 Package versions: apt_0.9.9.1 base-files_7.2 base-passwd_3.5.26 bash_4.2+dfsg-1 binutils_2.23.52.20130620-1 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.5 build-essential_11.6 bzip2_1.0.6-4 clang-3.3_1:3.3-3 coreutils_8.20-3 cpp_4:4.8.1-2 cpp-4.6_4.6.4-4 cpp-4.7_4.7.3-6 cpp-4.8_4.8.1-6 dash_0.5.7-3 debconf_1.5.50 debconf-i18n_1.5.50 debfoster_2.7-1.2 debhelper_9.20130630 debian-archive-keyring_2012.4 debianutils_4.3.4 diffutils_1:3.2-8 dpkg_1.16.10 dpkg-dev_1.16.10 e2fslibs_1.42.8-1 e2fsprogs_1.42.8-1 fakeroot_1.19-2 file_1:5.14-2 findutils_4.4.2-6 g++_4:4.8.1-2 g++-4.6_4.6.4-4 g++-4.8_4.8.1-6 gcc_4:4.8.1-2 gcc-4.4-base_4.4.7-4 gcc-4.5-base_4.5.4-1 gcc-4.6_4.6.4-4 gcc-4.6-base_4.6.4-4 gcc-4.7_4.7.3-6 gcc-4.7-base_4.7.3-6 gcc-4.8_4.8.1-6 gcc-4.8-base_4.8.1-6 gettext_0.18.3-1 gettext-base_0.18.3-1 gnupg_1.4.12-7 gpgv_1.4.12-7 grep_2.14-2 groff-base_1.22.2-3 gzip_1.6-1 help2man_1.43.3 hostname_3.13 initscripts_2.88dsf-42 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 libacl1_2.2.52-1 libapt-pkg4.12_0.9.9.1 libasan0_4.8.1-6 libasprintf0c2_0.18.3-1 libatomic1_4.8.1-6 libattr1_1:2.4.47-1 libblkid1_2.20.1-5.5 libbz2-1.0_1.0.6-4 libc-bin_2.17-7 libc-dev-bin_2.17-7 libc6_2.17-7 libc6-dev_2.17-7 libcap2_1:2.22-1.2 libclang-common-3.3-dev_1:3.3-3 libclang1-3.3_1:3.3-3 libclass-isa-perl_0.36-5 libcloog-isl4_0.18.0-2 libcloog-ppl1_0.16.1-3 libcomerr2_1.42.8-1 libcroco3_0.6.8-2 libdb5.1_5.1.29-6 libdpkg-perl_1.16.10 libffi6_3.0.13-4 libffindex0_0.9.9.1-1 libffindex0-dev_0.9.9.1-1 libfile-fcntllock-perl_0.14-2 libgc1c2_1:7.2d-5 libgcc-4.7-dev_4.7.3-6 libgcc-4.8-dev_4.8.1-6 libgcc1_1:4.8.1-6 libgdbm3_1.8.3-12 libglib2.0-0_2.36.3-3 libgmp10_2:5.1.2+dfsg-2 libgmpxx4ldbl_2:5.1.2+dfsg-2 libgomp1_4.8.1-6 libgpm2_1.20.4-6.1 libisl10_0.11.2-1 libitm1_4.8.1-6 libllvm3.3_1:3.3-3 liblocale-gettext-perl_1.05-7+b1 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.14-2 libmount1_2.20.1-5.5 libmpc2_0.9-4 libmpc3_1.0.1-1 libmpfr4_3.1.1-1 libncurses5_5.9+20130608-1 libobjc-4.7-dev_4.7.3-6 libobjc4_4.8.1-6 libpam-modules_1.1.3-9 libpam-modules-bin_1.1.3-9 libpam-runtime_1.1.3-9 libpam0g_1.1.3-9 libpcre3_1:8.31-2 libpipeline1_1.2.4-1 libpng12-0_1.2.49-4 libpng12-dev_1.2.49-4 libppl-c4_1:1.0-7 libppl12_1:1.0-7 libquadmath0_4.8.1-6 libreadline6_6.2+dfsg-0.1 libselinux1_2.1.13-2 libsemanage-common_2.1.10-2 libsemanage1_2.1.10-2 libsepol1_2.1.9-2 libslang2_2.2.4-15 libss2_1.42.8-1 libstdc++-4.8-dev_4.8.1-6 libstdc++6_4.8.1-6 libstdc++6-4.6-dev_4.6.4-4 libstdc++6-4.7-dev_4.7.3-6 libswitch-perl_2.16-2 libtext-charwidth-perl_0.04-7+b1 libtext-iconv-perl_1.7-5 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtinfo5_5.9+20130608-1 libtsan0_4.8.1-6 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.2 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.5 libxml2_2.9.1+dfsg1-2 linux-libc-dev_3.9.8-1 login_1:4.1.5.1-1 lsb-base_4.1+Debian12 make_3.81-8.2 man-db_2.6.5-2 mawk_1.3.3-17 mount_2.20.1-5.5 multiarch-support_2.17-7 ncurses-base_5.9+20130608-1 ncurses-bin_5.9+20130608-1 passwd_1:4.1.5.1-1 patch_2.7.1-3 perl_5.14.2-21 perl-base_5.14.2-21 perl-modules_5.14.2-21 po-debconf_1.0.16+nmu2 readline-common_6.2+dfsg-0.1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-hhsuite-dummy_0.invalid.0 sed_4.2.2-1 sensible-utils_0.0.9 sudo_1.8.5p2-1+nmu1 sysv-rc_2.88dsf-42 sysvinit_2.88dsf-42 sysvinit-utils_2.88dsf-42 tar_1.26+dfsg-6 tzdata_2013c-2 ucf_3.0027+nmu1 util-linux_2.20.1-5.5 vim_2:7.3.923-3 vim-common_2:7.3.923-3 vim-runtime_2:7.3.923-3 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1 zlib1g-dev_1:1.2.8.dfsg-1 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Thu May 23 12:14:09 2013 UTC using RSA key ID 9A0C52FA gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./hhsuite_2.0.16-1.dsc dpkg-source: info: extracting hhsuite in hhsuite-2.0.16 dpkg-source: info: unpacking hhsuite_2.0.16.orig.tar.gz dpkg-source: info: unpacking hhsuite_2.0.16-1.debian.tar.gz dpkg-source: info: applying Makefile dpkg-source: info: applying paths dpkg-source: info: applying help dpkg-source: info: applying rest1 dpkg-source: info: applying perlscript_uselib dpkg-source: info: applying hardening dpkg-source: info: applying unused_variables_warning dpkg-source: info: applying unnecessary_libz dpkg-source: info: applying perl_interpreter dpkg-source: info: applying version_bump Check disc space ──────────────── Sufficient free space for build Hack binNMU version ─────────────────── Created changelog entry for binNMU version 2.0.16-1clang1 User Environment ──────────────── HOME=/sbuild-nonexistent LOGNAME=user PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1000 SCHROOT_GROUP=user SCHROOT_SESSION_ID=unstable-amd64-sbuild-03f2ea0f-d14e-4422-b868-f9681c40f68b SCHROOT_UID=1000 SCHROOT_USER=user SHELL=/bin/sh USER=user dpkg-buildpackage ───────────────── dpkg-buildpackage: source package hhsuite dpkg-buildpackage: source version 2.0.16-1clang1 dpkg-source --before-build hhsuite-2.0.16 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean dh clean --parallel dh_testdir -O--parallel dh_auto_clean -O--parallel make[1]: Entering directory `/«PKGBUILDDIR»' make -C src clean make[2]: Entering directory `/«PKGBUILDDIR»/src' rm -f *.o cs/*.o rm -f hhconsensus hhconsensus_valgrind hhfilter_valgrind hhfilter hhalign_valgrind hhalign hhmake hhblits_valgrind hhblits hhsearch_valgrind hhsearch cstranslate make[2]: Leaving directory `/«PKGBUILDDIR»/src' make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_clean make[1]: Entering directory `/«PKGBUILDDIR»' rm -f hhalign.1 hhblits.1 hhconsensus.1 hhfilter.1 hhmake.1 hhsearch.1 dh_clean make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules build-arch dh build-arch --parallel dh_testdir -a -O--parallel dh_auto_configure -a -O--parallel dh_auto_build -a -O--parallel make[1]: Entering directory `/«PKGBUILDDIR»' make -C data all make[2]: Entering directory `/«PKGBUILDDIR»/data' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/«PKGBUILDDIR»/data' make -C src all make[2]: Entering directory `/«PKGBUILDDIR»/src' g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -Wall -Wno-deprecated -Wno-char-subscripts -fno-strict-aliasing -Ics -fopenmp -DHH_SSE3 -msse3 -Wl,-z,relro -fopenmp -c cs/aa.cc -o cs/aa.o clang: warning: -Wl,-z,relro: 'linker' input unused clang: warning: argument unused during compilation: '-fopenmp' clang: warning: argument unused during compilation: '-fopenmp' g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -Wall -Wno-deprecated -Wno-char-subscripts -fno-strict-aliasing -Ics -fopenmp -DHH_SSE3 -msse3 -Wl,-z,relro -fopenmp -c cs/application.cc -o cs/application.o clang: warning: -Wl,-z,relro: 'linker' input unused clang: warning: argument unused during compilation: '-fopenmp' clang: warning: argument unused during compilation: '-fopenmp' g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -Wall -Wno-deprecated -Wno-char-subscripts -fno-strict-aliasing -Ics -fopenmp -DHH_SSE3 -msse3 -Wl,-z,relro -fopenmp -c cs/as.cc -o cs/as.o clang: warning: -Wl,-z,relro: 'linker' input unused clang: warning: argument unused during compilation: '-fopenmp' clang: warning: argument unused during compilation: '-fopenmp' g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -Wall -Wno-deprecated -Wno-char-subscripts -fno-strict-aliasing -Ics -fopenmp -DHH_SSE3 -msse3 -Wl,-z,relro -fopenmp -c cs/assert_helpers.cc -o cs/assert_helpers.o clang: warning: -Wl,-z,relro: 'linker' input unused clang: warning: argument unused during compilation: '-fopenmp' clang: warning: argument unused during compilation: '-fopenmp' g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -Wall -Wno-deprecated -Wno-char-subscripts -fno-strict-aliasing -Ics -fopenmp -DHH_SSE3 -msse3 -Wl,-z,relro -fopenmp -c cs/blosum_matrix.cc -o cs/blosum_matrix.o clang: warning: -Wl,-z,relro: 'linker' input unused clang: warning: argument unused during compilation: '-fopenmp' clang: warning: argument unused during compilation: '-fopenmp' g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -Wall -Wno-deprecated -Wno-char-subscripts -fno-strict-aliasing -Ics -fopenmp -DHH_SSE3 -msse3 -Wl,-z,relro -fopenmp -c cs/getopt_pp.cc -o cs/getopt_pp.o clang: warning: -Wl,-z,relro: 'linker' input unused clang: warning: argument unused during compilation: '-fopenmp' clang: warning: argument unused during compilation: '-fopenmp' g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -Wall -Wno-deprecated -Wno-char-subscripts -fno-strict-aliasing -Ics -fopenmp -DHH_SSE3 -msse3 -Wl,-z,relro -fopenmp -c cs/log.cc -o cs/log.o clang: warning: -Wl,-z,relro: 'linker' input unused clang: warning: argument unused during compilation: '-fopenmp' clang: warning: argument unused during compilation: '-fopenmp' g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -Wall -Wno-deprecated -Wno-char-subscripts -fno-strict-aliasing -Ics -fopenmp -DHH_SSE3 -msse3 -Wl,-z,relro hhblits.C -o hhblits cs/aa.o cs/application.o cs/as.o cs/assert_helpers.o cs/blosum_matrix.o cs/getopt_pp.o cs/log.o -lpthread -fopenmp -lrt -lffindex In file included from hhblits.C:123: In file included from cs/context_library.h:8: In file included from cs/context_profile.h:7: In file included from cs/count_profile-inl.h:6: In file included from cs/count_profile.h:6: cs/alignment.h:93:56: error: reference to non-static member function must be called; did you mean to call it with no arguments? void set_name(const std::string& header) { name_ = name; } ^~~~ () In file included from hhblits.C:123: In file included from cs/context_library.h:8: In file included from cs/context_profile.h:7: In file included from cs/count_profile-inl.h:8: cs/alignment-inl.h:655:15: warning: comparison of constant -1 with expression of type 'uint8_t' (aka 'unsigned char') is always false [-Wtautological-constant-out-of-range-compare] if (c == EOF) break; ~ ^ ~~~ cs/alignment-inl.h:827:21: warning: add explicit braces to avoid dangling else [-Wdangling-else] else ^ In file included from hhblits.C:123: In file included from cs/context_library.h:9: cs/pseudocounts.h:14:1: warning: class template 'CountProfile' was previously declared as a struct template [-Wmismatched-tags] class CountProfile; ^ cs/count_profile.h:14:8: note: previous use is here struct CountProfile { ^ cs/pseudocounts.h:14:1: note: did you mean struct here? class CountProfile; ^~~~~ struct In file included from hhblits.C:132: ./hhutil.C:478:49: warning: when type is in parentheses, array cannot have dynamic size argv_conf[argc_conf]=new(char[strlen(c_first)+1]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhutil.C:483:45: warning: when type is in parentheses, array cannot have dynamic size argv_conf[argc_conf]=new(char[strlen(c_first)+1]); ~ ^~~~~~~~~~~~~~~~~ ~ In file included from hhblits.C:142: ./hhhmm.C:169:23: warning: when type is in parentheses, array cannot have dynamic size sname[k]=new(char[strlen(q.sname[k])+1]); ~ ^~~~~~~~~~~~~~~~~~~~ ~ ./hhhmm.C:174:21: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[strlen(q.seq[k])+1]); ~ ^~~~~~~~~~~~~~~~~~ ~ ./hhhmm.C:360:39: warning: when type is in parentheses, array cannot have dynamic size seq[k-1]=new(char[strlen(cur_seq)+1]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhhmm.C:367:40: warning: when type is in parentheses, array cannot have dynamic size sname[k] = new (char[strlen(line+1)+1]); //+1 for terminating '\0' ~ ^~~~~~~~~~~~~~~~ ~ ./hhhmm.C:468:29: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[strlen(cur_seq)+1]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhhmm.C:719:40: warning: when type is in parentheses, array cannot have dynamic size seq[nsa_dssp] = new(char[par.maxres+2]); ~ ^~~~~~~~~~~~ ~ ./hhhmm.C:740:40: warning: when type is in parentheses, array cannot have dynamic size seq[nss_pred] = new(char[par.maxres+2]); ~ ^~~~~~~~~~~~ ~ ./hhhmm.C:761:40: warning: when type is in parentheses, array cannot have dynamic size seq[nss_conf] = new(char[par.maxres+2]); ~ ^~~~~~~~~~~~ ~ ./hhhmm.C:835:36: warning: when type is in parentheses, array cannot have dynamic size seq[nss_dssp] = new(char[par.maxres+2]); ~ ^~~~~~~~~~~~ ~ ./hhhmm.C:1009:27: warning: when type is in parentheses, array cannot have dynamic size sname[k+1]=new(char[strlen(longname)+1]); ~ ^~~~~~~~~~~~~~~~~~ ~ ./hhhmm.C:1011:23: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[L+2]); ~ ^~~ ~ ./hhhmm.C:1014:25: warning: when type is in parentheses, array cannot have dynamic size seq[k+1]=new(char[L+2]); ~ ^~~ ~ ./hhhmm.C:1032:25: warning: when type is in parentheses, array cannot have dynamic size sname[k]=new(char[strlen(longname)+1]); ~ ^~~~~~~~~~~~~~~~~~ ~ ./hhhmm.C:1034:23: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[L+2]); ~ ^~~ ~ ./hhhmm.C:1182:40: warning: when type is in parentheses, array cannot have dynamic size seq[nsa_dssp] = new(char[par.maxres+2]); ~ ^~~~~~~~~~~~ ~ ./hhhmm.C:1203:40: warning: when type is in parentheses, array cannot have dynamic size seq[nss_pred] = new(char[par.maxres+2]); ~ ^~~~~~~~~~~~ ~ ./hhhmm.C:1224:40: warning: when type is in parentheses, array cannot have dynamic size seq[nss_conf] = new(char[par.maxres+2]); ~ ^~~~~~~~~~~~ ~ ./hhhmm.C:1295:36: warning: when type is in parentheses, array cannot have dynamic size seq[nss_dssp] = new(char[par.maxres+2]); ~ ^~~~~~~~~~~~ ~ ./hhhmm.C:1471:27: warning: when type is in parentheses, array cannot have dynamic size sname[k+1]=new(char[strlen(longname)+1]); ~ ^~~~~~~~~~~~~~~~~~ ~ ./hhhmm.C:1473:23: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[L+2]); ~ ^~~ ~ ./hhhmm.C:1476:25: warning: when type is in parentheses, array cannot have dynamic size seq[k+1]=new(char[L+2]); ~ ^~~ ~ ./hhhmm.C:1494:25: warning: when type is in parentheses, array cannot have dynamic size sname[k]=new(char[strlen(longname)+1]); ~ ^~~~~~~~~~~~~~~~~~ ~ ./hhhmm.C:1496:23: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[L+2]); ~ ^~~ ~ ./hhhmm.C:2177:28: warning: when type is in parentheses, array cannot have dynamic size char** lines = new(char*[3*L+100000]); ~ ^~~~~~~~~~ ~ ./hhhmm.C:2205:29: warning: when type is in parentheses, array cannot have dynamic size lines[nline]=new(char[strlen(line)+1]); ~ ^~~~~~~~~~~~~~ ~ ./hhhmm.C:2329:30: warning: when type is in parentheses, array cannot have dynamic size seq[nss_pred]=new(char[L+2]); ~ ^~~ ~ ./hhhmm.C:2336:30: warning: when type is in parentheses, array cannot have dynamic size seq[nss_conf]=new(char[L+2]); ~ ^~~ ~ In file included from hhblits.C:143: ./hhalignment.C:47:21: warning: when type is in parentheses, array cannot have dynamic size sname = new(char*[maxseq+2]); ~ ^~~~~~~~ ~ ./hhalignment.C:48:19: warning: when type is in parentheses, array cannot have dynamic size seq = new(char*[maxseq+2]); ~ ^~~~~~~~ ~ ./hhalignment.C:49:15: warning: when type is in parentheses, array cannot have dynamic size l = new(int[maxres]); ~ ^~~~~~ ~ ./hhalignment.C:50:17: warning: when type is in parentheses, array cannot have dynamic size X = new(char*[maxseq+2]); ~ ^~~~~~~~ ~ ./hhalignment.C:51:31: warning: when type is in parentheses, array cannot have dynamic size I = new(short unsigned int*[maxseq+2]); ~ ^~~~~~~~ ~ ./hhalignment.C:52:19: warning: when type is in parentheses, array cannot have dynamic size keep = new(char[maxseq+2]); ~ ^~~~~~~~ ~ ./hhalignment.C:53:22: warning: when type is in parentheses, array cannot have dynamic size display = new(char[maxseq+2]); ~ ^~~~~~~~ ~ ./hhalignment.C:54:18: warning: when type is in parentheses, array cannot have dynamic size wg = new(float[maxseq+2]); ~ ^~~~~~~~ ~ ./hhalignment.C:55:19: warning: when type is in parentheses, array cannot have dynamic size nseqs = new(int[maxres+2]); ~ ^~~~~~~~ ~ ./hhalignment.C:144:20: warning: when type is in parentheses, array cannot have dynamic size nres=new(int[N_in]); ~ ^~~~ ~ ./hhalignment.C:150:25: warning: when type is in parentheses, array cannot have dynamic size sname[k]=new(char[strlen(ali.sname[k])+1]); ~ ^~~~~~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:156:23: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[strlen(ali.seq[k])+1]); ~ ^~~~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:162:21: warning: when type is in parentheses, array cannot have dynamic size X[k]=new(char[strlen(ali.seq[k])+2]); ~ ^~~~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:167:35: warning: when type is in parentheses, array cannot have dynamic size I[k]=new(short unsigned int[strlen(ali.seq[k])+2]); ~ ^~~~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:252:31: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[strlen(cur_seq)+2]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:254:29: warning: when type is in parentheses, array cannot have dynamic size X[k]=new(char[strlen(cur_seq)+2]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:256:43: warning: when type is in parentheses, array cannot have dynamic size I[k]=new(short unsigned int[strlen(cur_seq)+2]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:315:31: warning: when type is in parentheses, array cannot have dynamic size sname[k] = new(char[strlen(cur_name)+1]); ~ ^~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:431:23: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[strlen(cur_seq)+2]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:433:21: warning: when type is in parentheses, array cannot have dynamic size X[k]=new(char[strlen(cur_seq)+2]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:435:35: warning: when type is in parentheses, array cannot have dynamic size I[k]=new(short unsigned int[strlen(cur_seq)+2]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:649:31: warning: when type is in parentheses, array cannot have dynamic size if (nres==NULL) nres=new(int[N_in]); ~ ^~~~ ~ ./hhalignment.C:923:23: warning: when type is in parentheses, array cannot have dynamic size seq[k]=new(char[strlen(q->seq[qk])+1]); ~ ^~~~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:926:21: warning: when type is in parentheses, array cannot have dynamic size X[k]=new(char[strlen(q->seq[qk])+1]); ~ ^~~~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:928:35: warning: when type is in parentheses, array cannot have dynamic size I[k]=new(short unsigned int[strlen(q->seq[qk])+1]); ~ ^~~~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:949:27: warning: when type is in parentheses, array cannot have dynamic size sname[k] = new(char[strlen(q->sname[qk])+1]); ~ ^~~~~~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:972:26: warning: when type is in parentheses, array cannot have dynamic size char *dummy = new(char[N_in+1]); ~ ^~~~~~ ~ ./hhalignment.C:1031:21: warning: when type is in parentheses, array cannot have dynamic size char* in=new(char[N_in+1]); // in[k]=1: seq k has been accepted; in[k]=0: seq k has not yet been accepted at current seqid ~ ^~~~~~ ~ ./hhalignment.C:1032:23: warning: when type is in parentheses, array cannot have dynamic size char* inkk=new(char[N_in+1]); // inkk[k]=1 iff in[ksort[k]]=1 else 0; ~ ^~~~~~ ~ ./hhalignment.C:1033:21: warning: when type is in parentheses, array cannot have dynamic size int* Nmax=new(int[L+2]); // position-dependent maximum-sequence-identity threshold for filtering? (variable used in former version was idmax) ~ ^~~ ~ ./hhalignment.C:1034:25: warning: when type is in parentheses, array cannot have dynamic size int* idmaxwin=new(int[L+2]); // minimum value of idmax[i-WFIL,i+WFIL] ~ ^~~ ~ ./hhalignment.C:1035:27: warning: when type is in parentheses, array cannot have dynamic size int* seqid_prev=new(int[N_in+1]); // maximum-sequence-identity threshold used in previous round of filtering (with lower seqid) ~ ^~~~~~ ~ ./hhalignment.C:1036:18: warning: when type is in parentheses, array cannot have dynamic size int* N=new(int[L+2]); // N[i] number of already accepted sequences at position i ~ ^~~ ~ ./hhalignment.C:1064:21: warning: when type is in parentheses, array cannot have dynamic size first=new(int[N_in]);// first non-gap position in sequence k ~ ^~~~ ~ ./hhalignment.C:1065:21: warning: when type is in parentheses, array cannot have dynamic size last =new(int[N_in]);// last non-gap position in sequence k ~ ^~~~ ~ ./hhalignment.C:1079:20: warning: when type is in parentheses, array cannot have dynamic size nres=new(int[N_in]); ~ ^~~~ ~ ./hhalignment.C:1095:21: warning: when type is in parentheses, array cannot have dynamic size ksort=new(int[N_in]); // never reuse alignment object for new alignment with more sequences ~ ^~~~ ~ ./hhalignment.C:1303:30: warning: when type is in parentheses, array cannot have dynamic size float** logodds=new(float*[L+1]); // log-odds ratios for HMM qcore ~ ^~~ ~ ./hhalignment.C:1312:21: warning: when type is in parentheses, array cannot have dynamic size first=new(int[N_in]);// first non-gap position in sequence k ~ ^~~~ ~ ./hhalignment.C:1313:21: warning: when type is in parentheses, array cannot have dynamic size last =new(int[N_in]);// last non-gap position in sequence k ~ ^~~~ ~ ./hhalignment.C:1326:20: warning: when type is in parentheses, array cannot have dynamic size nres=new(int[N_in]); ~ ^~~~ ~ ./hhalignment.C:1598:37: warning: when type is in parentheses, array cannot have dynamic size q->seq[q->ncons]=new(char[L+2]); ~ ^~~ ~ ./hhalignment.C:1605:40: warning: when type is in parentheses, array cannot have dynamic size q->sname[q->nfirst]=new(char[strlen(name)+11]); ~ ^~~~~~~~~~~~~~~ ~ ./hhalignment.C:1609:38: warning: when type is in parentheses, array cannot have dynamic size q->seq[q->nfirst]=new(char[L+2]); ~ ^~~ ~ ./hhalignment.C:1661:33: warning: when type is in parentheses, array cannot have dynamic size q->sname[nn]=new(char[strlen(sname[k])+1]); ~ ^~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:1664:31: warning: when type is in parentheses, array cannot have dynamic size q->seq[nn]=new(char[strlen(seq[k])+1]); ~ ^~~~~~~~~~~~~~~~ ~ ./hhalignment.C:1764:16: warning: when type is in parentheses, array cannot have dynamic size n = new(int*[L+2]); ~ ^~~ ~ ./hhalignment.C:1826:57: warning: add explicit braces to avoid dangling else [-Wdangling-else] if(in[k] && X[k][i]0) wi[k]=wg[k]; else wi[k]=0.0; ^ ./hhalignment.C:2173:16: warning: when type is in parentheses, array cannot have dynamic size n = new(int*[L+2]); ~ ^~~ ~ ./hhalignment.C:2243:58: warning: add explicit braces to avoid dangling else [-Wdangling-else] if(in[k] && X[k][i]==GAP) wi[k]=wg[k]; else wi[k]=0.0; ^ ./hhalignment.C:2430:28: warning: when type is in parentheses, array cannot have dynamic size char* cur_seq = new(char[par.maxcol]); // Sequence currently read in ~ ^~~~~~~~~~ ~ ./hhalignment.C:2442:23: warning: when type is in parentheses, array cannot have dynamic size int* imatch=new(int[hit.j2+1]); ~ ^~~~~~~~ ~ ./hhalignment.C:2574:38: warning: when type is in parentheses, array cannot have dynamic size char* new_seq=new(char[2*maxcol]); ~ ^~~~~~~~ ~ ./hhalignment.C:2587:26: warning: when type is in parentheses, array cannot have dynamic size seq[N_in]=new(char[h]); ~ ^ ~ ./hhalignment.C:2590:24: warning: when type is in parentheses, array cannot have dynamic size X[N_in]=new(char[h]); ~ ^ ~ ./hhalignment.C:2592:38: warning: when type is in parentheses, array cannot have dynamic size I[N_in]=new(short unsigned int[h]); ~ ^ ~ ./hhalignment.C:2594:28: warning: when type is in parentheses, array cannot have dynamic size sname[N_in]=new(char[strlen(Tali.sname[k])+1]); ~ ^~~~~~~~~~~~~~~~~~~~~~~ ~ ./hhalignment.C:2625:20: warning: when type is in parentheses, array cannot have dynamic size X[N_in]=new(char[L+2]); ~ ^~~ ~ ./hhalignment.C:2663:26: warning: when type is in parentheses, array cannot have dynamic size seq[N_in]=new(char[L+2]); ~ ^~~ ~ ./hhalignment.C:2665:24: warning: when type is in parentheses, array cannot have dynamic size X[N_in]=new(char[L+2]); ~ ^~~ ~ ./hhalignment.C:2667:38: warning: when type is in parentheses, array cannot have dynamic size I[N_in]=new(short unsigned int[L+2]); ~ ^~~ ~ ./hhalignment.C:2686:26: warning: when type is in parentheses, array cannot have dynamic size seq[N_in]=new(char[L+2]); ~ ^~~ ~ ./hhalignment.C:2688:24: warning: when type is in parentheses, array cannot have dynamic size X[N_in]=new(char[L+2]); ~ ^~~ ~ ./hhalignment.C:2690:38: warning: when type is in parentheses, array cannot have dynamic size I[N_in]=new(short unsigned int[L+2]); ~ ^~~ ~ ./hhalignment.C:2743:20: warning: when type is in parentheses, array cannot have dynamic size n = new(int*[L+2]); ~ ^~~ ~ In file included from hhblits.C:144: ./hhhit.C:141:17: warning: when type is in parentheses, array cannot have dynamic size bMM=new(char*[Nq]); ~ ^~ ~ ./hhhit.C:142:17: warning: when type is in parentheses, array cannot have dynamic size bMI=new(char*[Nq]); ~ ^~ ~ ./hhhit.C:143:17: warning: when type is in parentheses, array cannot have dynamic size bIM=new(char*[Nq]); ~ ^~ ~ ./hhhit.C:144:17: warning: when type is in parentheses, array cannot have dynamic size bDG=new(char*[Nq]); ~ ^~ ~ ./hhhit.C:145:17: warning: when type is in parentheses, array cannot have dynamic size bGD=new(char*[Nq]); ~ ^~ ~ ./hhhit.C:146:22: warning: when type is in parentheses, array cannot have dynamic size cell_off=new(char*[Nq]); ~ ^~ ~ ./hhhit.C:149:23: warning: when type is in parentheses, array cannot have dynamic size bMM[i]=new(char[Nt]); ~ ^~ ~ ./hhhit.C:150:23: warning: when type is in parentheses, array cannot have dynamic size bMI[i]=new(char[Nt]); ~ ^~ ~ ./hhhit.C:151:23: warning: when type is in parentheses, array cannot have dynamic size bIM[i]=new(char[Nt]); ~ ^~ ~ ./hhhit.C:152:23: warning: when type is in parentheses, array cannot have dynamic size bGD[i]=new(char[Nt]); ~ ^~ ~ ./hhhit.C:153:23: warning: when type is in parentheses, array cannot have dynamic size bDG[i]=new(char[Nt]); ~ ^~ ~ ./hhhit.C:154:28: warning: when type is in parentheses, array cannot have dynamic size cell_off[i]=new(char[Nt]); ~ ^~ ~ ./hhhit.C:192:20: warning: when type is in parentheses, array cannot have dynamic size F_MM=new(double*[Nq]); ~ ^~ ~ ./hhhit.C:199:20: warning: when type is in parentheses, array cannot have dynamic size scale=new(double[Nq+1]); // need Nq+3? ~ ^~~~ ~ ./hhhit.C:202:28: warning: when type is in parentheses, array cannot have dynamic size F_MM[i] = new(double[Nt]); ~ ^~ ~ ./hhhit.C:252:20: warning: when type is in parentheses, array cannot have dynamic size B_MM=new(double*[Nq]); ~ ^~ ~ ./hhhit.C:261:28: warning: when type is in parentheses, array cannot have dynamic size B_MM[i] = new(double[Nt]); ~ ^~ ~ ./hhhit.C:291:15: warning: when type is in parentheses, array cannot have dynamic size i = new(int[len]); ~ ^~~ ~ ./hhhit.C:292:15: warning: when type is in parentheses, array cannot have dynamic size j = new(int[len]); ~ ^~~ ~ ./hhhit.C:1147:21: warning: when type is in parentheses, array cannot have dynamic size S = new( float[nsteps+1]); ~ ^~~~~~~~ ~ ./hhhit.C:1148:21: warning: when type is in parentheses, array cannot have dynamic size S_ss = new( float[nsteps+1]); ~ ^~~~~~~~ ~ ./hhhit.C:1487:21: warning: when type is in parentheses, array cannot have dynamic size S = new( float[nsteps+1]); ~ ^~~~~~~~ ~ ./hhhit.C:1488:21: warning: when type is in parentheses, array cannot have dynamic size S_ss = new( float[nsteps+1]); ~ ^~~~~~~~ ~ ./hhhit.C:1489:28: warning: when type is in parentheses, array cannot have dynamic size P_posterior = new( float[nsteps+1]); ~ ^~~~~~~~ ~ ./hhhit.C:1795:21: warning: when type is in parentheses, array cannot have dynamic size longname=new(char[strlen(t->longname)+1]); ~ ^~~~~~~~~~~~~~~~~~~~~ ~ ./hhhit.C:1796:21: warning: when type is in parentheses, array cannot have dynamic size name =new(char[strlen(t->name)+1]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhhit.C:1797:21: warning: when type is in parentheses, array cannot have dynamic size file =new(char[strlen(t->file)+1]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhhit.C:1808:22: warning: when type is in parentheses, array cannot have dynamic size this->i = new( int[i2+j2+2]); ~ ^~~~~~~ ~ ./hhhit.C:1809:22: warning: when type is in parentheses, array cannot have dynamic size this->j = new( int[i2+j2+2]); ~ ^~~~~~~ ~ ./hhhit.C:1810:23: warning: when type is in parentheses, array cannot have dynamic size states = new( char[i2+j2+2]); ~ ^~~~~~~ ~ ./hhhit.C:1813:19: warning: when type is in parentheses, array cannot have dynamic size sname=new(char*[t->n_display]); ~ ^~~~~~~~~~~~ ~ ./hhhit.C:1814:19: warning: when type is in parentheses, array cannot have dynamic size seq =new(char*[t->n_display]); ~ ^~~~~~~~~~~~ ~ ./hhhit.C:1833:24: warning: when type is in parentheses, array cannot have dynamic size sname[k] = new(char[strlen(t->sname[k])+1]); ~ ^~~~~~~~~~~~~~~~~~~~~ ~ ./hhhit.C:1834:24: warning: when type is in parentheses, array cannot have dynamic size seq[k] = new(char[strlen(t->seq[k])+1]); ~ ^~~~~~~~~~~~~~~~~~~ ~ ./hhhit.C:1840:20: warning: when type is in parentheses, array cannot have dynamic size dbfile = new(char[strlen(ptr)+1]); ~ ^~~~~~~~~~~~~ ~ In file included from hhblits.C:145: ./hhhalfalignment.C:46:15: warning: when type is in parentheses, array cannot have dynamic size h = new(int[maxseqdis]); //h[k] = next position of sequence k to be written ~ ^~~~~~~~~ ~ ./hhhalfalignment.C:47:17: warning: when type is in parentheses, array cannot have dynamic size s = new(char*[maxseqdis]); //s[k][h] = character in column h, sequence k of output alignment ~ ^~~~~~~~~ ~ ./hhhalfalignment.C:48:16: warning: when type is in parentheses, array cannot have dynamic size l = new(int*[maxseqdis]); //counts non-gap residues: l[k][i] = index of last residue AT OR BEFORE match state i in seq k ~ ^~~~~~~~~ ~ ./hhhalfalignment.C:49:16: warning: when type is in parentheses, array cannot have dynamic size m = new(int*[maxseqdis]); //counts positions: m[k][i] = position of match state i in string seq[k] ~ ^~~~~~~~~ ~ In file included from hhblits.C:262: ./hhprefilter.C:794:34: warning: when type is in parentheses, array cannot have dynamic size dbfiles_new[ndb_new]=new(char[strlen(db_name)+1]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhprefilter.C:846:30: warning: when type is in parentheses, array cannot have dynamic size dbnames[num_dbs]=new(char[strlen(word)+1]); ~ ^~~~~~~~~~~~~~ ~ ./hhprefilter.C:1045:38: warning: when type is in parentheses, array cannot have dynamic size __m128i** workspace = new(__m128i*[cpu]); ~ ^~~ ~ ./hhprefilter.C:1144:38: warning: when type is in parentheses, array cannot have dynamic size dbfiles_old[ndb_old]=new(char[strlen(db_name)+1]); ~ ^~~~~~~~~~~~~~~~~ ~ ./hhprefilter.C:1150:38: warning: when type is in parentheses, array cannot have dynamic size dbfiles_new[ndb_new]=new(char[strlen(db_name)+1]); ~ ^~~~~~~~~~~~~~~~~ ~ hhblits.C:781:32: warning: when type is in parentheses, array cannot have dynamic size Qali.longname = new(char[strlen(q->longname)+1]); ~ ^~~~~~~~~~~~~~~~~~~~~ ~ hhblits.C:914:32: warning: when type is in parentheses, array cannot have dynamic size hit[bin]->dbfile = new(char[strlen(dbfiles[idb])+1]); ~ ^~~~~~~~~~~~~~~~~~~~~~ ~ hhblits.C:1120:26: warning: when type is in parentheses, array cannot have dynamic size dbfiles[ndb]=new(char[strlen(hit_cur.dbfile)+1]); ~ ^~~~~~~~~~~~~~~~~~~~~~~~ ~ hhblits.C:1406:32: warning: when type is in parentheses, array cannot have dynamic size hit[bin]->dbfile = new(char[strlen(hit_cur.dbfile)+1]); ~ ^~~~~~~~~~~~~~~~~~~~~~~~ ~ hhblits.C:1716:36: warning: when type is in parentheses, array cannot have dynamic size hit[bin]->dbfile = new(char[strlen(dbfiles[idb])+1]); ~ ^~~~~~~~~~~~~~~~~~~~~~ ~ hhblits.C:2140:20: warning: when type is in parentheses, array cannot have dynamic size format = new(int[bins]); ~ ^~~~ ~ hhblits.C:2240:33: warning: when type is in parentheses, array cannot have dynamic size dbfiles_new[ndb_new]=new(char[strlen(dbfiles_old[a])+1]); ~ ^~~~~~~~~~~~~~~~~~~~~~~~ ~ 150 warnings and 1 error generated. make[2]: *** [hhblits] Error 1 make[2]: Leaving directory `/«PKGBUILDDIR»/src' make[1]: *** [all] Error 2 dh_auto_build: make -j1 returned exit code 2 make: *** [build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 make[1]: Leaving directory `/«PKGBUILDDIR»' ──────────────────────────────────────────────────────────────────────────────── Build finished at 20130717-0203 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Build Architecture: amd64 Build-Space: 13416 Build-Time: 10 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 9 Job: hhsuite_2.0.16-1 Machine Architecture: amd64 Package: hhsuite Package-Time: 82 Source-Version: 2.0.16-1 Space: 13416 Status: attempted Version: 2.0.16-1clang1 ──────────────────────────────────────────────────────────────────────────────── Finished at 20130717-0203 Build needed 00:01:22, 13416k disc space DC-Status: Failed 83.043484466s DC-Time-Estimation: 83.043484466 versus expected 155 (r/m: 0.8664920071298398 ; m: 83.043484466)