Tue Jul 9 15:01:09 UTC 2019 I: starting to build clustalx/buster/i386 on jenkins on '2019-07-09 15:00' Tue Jul 9 15:01:09 UTC 2019 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_15/163/console.log Tue Jul 9 15:01:09 UTC 2019 I: Downloading source for buster/clustalx=2.1+lgpl-8 --2019-07-09 15:01:09-- http://deb.debian.org/debian/pool/main/c/clustalx/clustalx_2.1+lgpl-8.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 302 Found Location: http://cdn-fastly.deb.debian.org/debian/pool/main/c/clustalx/clustalx_2.1+lgpl-8.dsc [following] --2019-07-09 15:01:09-- http://cdn-fastly.deb.debian.org/debian/pool/main/c/clustalx/clustalx_2.1+lgpl-8.dsc Reusing existing connection to 78.137.99.97:3128. Proxy request sent, awaiting response... 200 OK Length: 2079 (2.0K) Saving to: ‘clustalx_2.1+lgpl-8.dsc’ 0K .. 100% 96.6M=0s 2019-07-09 15:01:09 (96.6 MB/s) - ‘clustalx_2.1+lgpl-8.dsc’ saved [2079/2079] Tue Jul 9 15:01:09 UTC 2019 I: clustalx_2.1+lgpl-8.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: clustalx Binary: clustalx Architecture: any Version: 2.1+lgpl-8 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Charles Plessy , Andreas Tille Homepage: http://www.clustal.org/clustal2/ Standards-Version: 4.3.0 Vcs-Browser: https://salsa.debian.org/med-team/clustalx Vcs-Git: https://salsa.debian.org/med-team/clustalx.git Build-Depends: debhelper (>= 11~), qtbase5-dev, qtbase5-dev-tools, qttools5-dev-tools Package-List: clustalx deb science optional arch=any Checksums-Sha1: 63196a4e113a22e5e575f223d76b7406f4f70795 341649 clustalx_2.1+lgpl.orig.tar.gz d44f5076a1045f934c8186b52f55f50659882736 14908 clustalx_2.1+lgpl-8.debian.tar.xz Checksums-Sha256: e10adb728c320598a165ca529f1aa3d2560061de0236e0a0926eaca9554afa05 341649 clustalx_2.1+lgpl.orig.tar.gz cd42104fc76a3722f447927cf3f76eab0c82dae85db390994c3b98807cff6c29 14908 clustalx_2.1+lgpl-8.debian.tar.xz Files: 5b1f2f1cc8e939411ab0f934cafa072a 341649 clustalx_2.1+lgpl.orig.tar.gz d325a98eef7ecd7ac616d7d5045ef7d6 14908 clustalx_2.1+lgpl-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlxy7eoRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFzzA/+LzlrjGK5noZ8NwEOOZhabzxW3g4yY9Lb nmArwOrGvM+LI09bOJ/DfL8lGqDSJ5CMpcM1zuFmDbXEOQ+zxW6eK6ZoHrBGefWS fjJc79wyNkAh2OroGeTkpLt0woycp6DwQX1MXARIZEq8xTDKZ0Z7GSgCn32ut63M 2nOCHE4y2eo31U4jpYZzQNDH/8UABen1hpty2QdfUCLoWQ2NfYnUW81vLKZNOziW TwIBXWzbziA3/NW5HPJVYqNwlCu8MrfdnCc0iRvjvkjGbCsLzEqQK8zg8a7levby 51JThP0OXDghZ6wbGspJxUim7R8XHJz8V7v02QZZyXpXgBkrRJu+tbrRvHoORiGc OZ5Q4NQ6yb96qCxi3CDVEr1DcjgdudScaxD1rVlZrJErbPZ7z+vOYq/aKNM+WquA G3FG00qQu6tVfYA7I6EY5p8FiuHXMVVyOtjuw6884Cx2Nf6FyAaSUPTsETsjMStI brBjwSZBWjNFm1lRdTmH6s+WIbzZ0x5RGfv0vs5MDxqu1HuB/wFg/7YBlWmLTLF1 YaUmd+By3Ub/8SgAXyCj2diL8p92zVCgsGA4DsFDsDIuczwCD8VkzXscPFxpO8vw R53S2OBc+fAwsrnxzCEyMD0gt+VfoZkOPf9qm1PD0fb+j0MYgrDe57mEUXL5dr+S h9Qt4EZ+H4k= =kWMI -----END PGP SIGNATURE----- Tue Jul 9 15:01:09 UTC 2019 I: Checking whether the package is not for us Tue Jul 9 15:01:09 UTC 2019 I: Starting 1st build on remote node profitbricks-build12-i386.debian.net. Tue Jul 9 15:01:09 UTC 2019 I: Preparing to do remote build '1' on profitbricks-build12-i386.debian.net. Tue Jul 9 15:14:02 UTC 2019 I: Deleting $TMPDIR on profitbricks-build12-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jul 9 03:01:11 -12 2019 I: pbuilder-time-stamp: 1562684471 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [clustalx_2.1+lgpl-8.dsc] I: copying [./clustalx_2.1+lgpl.orig.tar.gz] I: copying [./clustalx_2.1+lgpl-8.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sun Feb 24 07:18:02 2019 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./clustalx_2.1+lgpl-8.dsc dpkg-source: info: extracting clustalx in clustalx-2.1+lgpl dpkg-source: info: unpacking clustalx_2.1+lgpl.orig.tar.gz dpkg-source: info: unpacking clustalx_2.1+lgpl-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardcode-accessory-file-locations.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying qt5.patch I: using fakeroot in build. I: Installing the build-deps -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 11~), qtbase5-dev, qtbase5-dev-tools, qttools5-dev-tools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19231 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on qtbase5-dev; however: Package qtbase5-dev is not installed. pbuilder-satisfydepends-dummy depends on qtbase5-dev-tools; however: Package qtbase5-dev-tools is not installed. pbuilder-satisfydepends-dummy depends on qttools5-dev-tools; however: Package qttools5-dev-tools is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} iso-codes{a} libarchive-zip-perl{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbrotli1{a} libbsd0{a} libcap2{a} libcap2-bin{a} libclang1-7{a} libcroco3{a} libcups2{a} libdbus-1-3{a} libdouble-conversion1{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-dev{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libegl-mesa0{a} libegl1{a} libelf1{a} libevdev2{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libgbm1{a} libgl1{a} libgl1-mesa-dev{a} libgl1-mesa-dri{a} libglapi-mesa{a} libgles1{a} libgles2{a} libglib2.0-0{a} libglu1-mesa{a} libglu1-mesa-dev{a} libglvnd-core-dev{a} libglvnd-dev{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgstreamer-plugins-base1.0-0{a} libgstreamer1.0-0{a} libgudev-1.0-0{a} libharfbuzz0b{a} libhyphen0{a} libice6{a} libicu63{a} libinput-bin{a} libinput10{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libllvm7{a} libmagic-mgc{a} libmagic1{a} libmtdev1{a} libncurses6{a} libopengl0{a} liborc-0.4-0{a} libpciaccess0{a} libpcre2-16-0{a} libpipeline1{a} libpng16-16{a} libpthread-stubs0-dev{a} libqt5concurrent5{a} libqt5core5a{a} libqt5dbus5{a} libqt5designer5{a} libqt5designercomponents5{a} libqt5gui5{a} libqt5help5{a} libqt5network5{a} libqt5positioning5{a} libqt5printsupport5{a} libqt5qml5{a} libqt5quick5{a} libqt5quickwidgets5{a} libqt5sensors5{a} libqt5sql5{a} libqt5sql5-sqlite{a} libqt5test5{a} libqt5webchannel5{a} libqt5webkit5{a} libqt5widgets5{a} libqt5xml5{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libsm6{a} libssl1.1{a} libtool{a} libuchardet0{a} libvulkan-dev{a} libvulkan1{a} libwacom-common{a} libwacom2{a} libwayland-client0{a} libwayland-server0{a} libwebp6{a} libwoff1{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb-dev{a} libx11-xcb1{a} libxau-dev{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri2-0-dev{a} libxcb-dri3-0{a} libxcb-dri3-dev{a} libxcb-glx0{a} libxcb-glx0-dev{a} libxcb-icccm4{a} libxcb-image0{a} libxcb-keysyms1{a} libxcb-present-dev{a} libxcb-present0{a} libxcb-randr0{a} libxcb-randr0-dev{a} libxcb-render-util0{a} libxcb-render0{a} libxcb-render0-dev{a} libxcb-shape0{a} libxcb-shape0-dev{a} libxcb-shm0{a} libxcb-sync-dev{a} libxcb-sync1{a} libxcb-util0{a} libxcb-xfixes0{a} libxcb-xfixes0-dev{a} libxcb-xinerama0{a} libxcb-xkb1{a} libxcb1{a} libxcb1-dev{a} libxdamage-dev{a} libxdamage1{a} libxdmcp-dev{a} libxdmcp6{a} libxext-dev{a} libxext6{a} libxfixes-dev{a} libxfixes3{a} libxi6{a} libxkbcommon-x11-0{a} libxkbcommon0{a} libxml2{a} libxrender1{a} libxshmfence-dev{a} libxshmfence1{a} libxslt1.1{a} libxxf86vm-dev{a} libxxf86vm1{a} lsb-base{a} m4{a} man-db{a} mesa-common-dev{a} po-debconf{a} qdoc-qt5{a} qt5-assistant{a} qt5-qmake{a} qt5-qmake-bin{a} qtbase5-dev{a} qtbase5-dev-tools{a} qtchooser{a} qttools5-dev-tools{a} sensible-utils{a} ucf{a} x11-common{a} x11proto-core-dev{a} x11proto-damage-dev{a} x11proto-dev{a} x11proto-fixes-dev{a} x11proto-xext-dev{a} x11proto-xf86vidmode-dev{a} xkb-data{a} xorg-sgml-doctools{a} xtrans-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl dbus geoclue-2.0 gstreamer1.0-plugins-base krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libpam-cap libqt5opengl5-dev libqt5svg5 libwacom-bin lynx qt5-gtk-platformtheme qttranslations5-l10n shared-mime-info wget xdg-user-dirs 0 packages upgraded, 204 newly installed, 0 to remove and 0 not upgraded. Need to get 108 MB of archives. After unpacking 551 MB will be used. Writing extended state information... Get: 1 http://cdn-fastly.deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://cdn-fastly.deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://cdn-fastly.deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://cdn-fastly.deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://cdn-fastly.deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2 [1333 kB] Get: 8 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcap2 i386 1:2.25-2 [18.0 kB] Get: 9 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcap2-bin i386 1:2.25-2 [28.9 kB] Get: 10 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgstreamer1.0-0 i386 1.14.4-1 [2133 kB] Get: 11 http://cdn-fastly.deb.debian.org/debian buster/main i386 liborc-0.4-0 i386 1:0.4.28-3.1 [152 kB] Get: 12 http://cdn-fastly.deb.debian.org/debian buster/main i386 iso-codes all 4.2-1 [2713 kB] Get: 13 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgstreamer-plugins-base1.0-0 i386 1.14.4-2 [1956 kB] Get: 14 http://cdn-fastly.deb.debian.org/debian buster/main i386 libhyphen0 i386 2.8.8-7 [32.3 kB] Get: 15 http://cdn-fastly.deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6 [8443 kB] Get: 16 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjpeg62-turbo i386 1:1.5.2-2+b1 [142 kB] Get: 17 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpng16-16 i386 1.6.36-6 [301 kB] Get: 18 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdouble-conversion1 i386 3.1.0-3 [43.3 kB] Get: 19 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpcre2-16-0 i386 10.32-5 [203 kB] Get: 20 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5core5a i386 5.11.3+dfsg1-1 [2511 kB] Get: 21 http://cdn-fastly.deb.debian.org/debian buster/main i386 libexpat1 i386 2.2.6-2 [103 kB] Get: 22 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfreetype6 i386 2.9.1-3 [394 kB] Get: 23 http://cdn-fastly.deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 24 http://cdn-fastly.deb.debian.org/debian buster/main i386 ucf all 3.0038+nmu1 [69.0 kB] Get: 25 http://cdn-fastly.deb.debian.org/debian buster/main i386 fonts-dejavu-core all 2.37-1 [1068 kB] Get: 26 http://cdn-fastly.deb.debian.org/debian buster/main i386 fontconfig-config all 2.13.1-2 [280 kB] Get: 27 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfontconfig1 i386 2.13.1-2 [357 kB] Get: 28 http://cdn-fastly.deb.debian.org/debian buster/main i386 fontconfig i386 2.13.1-2 [405 kB] Get: 29 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdrm-common all 2.4.97-1 [13.8 kB] Get: 30 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdrm2 i386 2.4.97-1 [42.5 kB] Get: 31 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglvnd0 i386 1.1.0-1 [41.9 kB] Get: 32 http://cdn-fastly.deb.debian.org/debian buster/main i386 libwayland-server0 i386 1.16.0-1 [33.7 kB] Get: 33 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgbm1 i386 18.3.6-2 [69.4 kB] Get: 34 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglapi-mesa i386 18.3.6-2 [66.0 kB] Get: 35 http://cdn-fastly.deb.debian.org/debian buster/main i386 libwayland-client0 i386 1.16.0-1 [27.0 kB] Get: 36 http://cdn-fastly.deb.debian.org/debian buster/main i386 libx11-xcb1 i386 2:1.6.7-1 [190 kB] Get: 37 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxau6 i386 1:1.0.8-1+b2 [20.3 kB] Get: 38 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 39 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb1 i386 1.13.1-2 [141 kB] Get: 40 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-dri2-0 i386 1.13.1-2 [101 kB] Get: 41 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-dri3-0 i386 1.13.1-2 [101 kB] Get: 42 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-present0 i386 1.13.1-2 [99.4 kB] Get: 43 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-sync1 i386 1.13.1-2 [103 kB] Get: 44 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-xfixes0 i386 1.13.1-2 [103 kB] Get: 45 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxshmfence1 i386 1.3-1 [8976 B] Get: 46 http://cdn-fastly.deb.debian.org/debian buster/main i386 libegl-mesa0 i386 18.3.6-2 [142 kB] Get: 47 http://cdn-fastly.deb.debian.org/debian buster/main i386 libegl1 i386 1.1.0-1 [35.3 kB] Get: 48 http://cdn-fastly.deb.debian.org/debian buster/main i386 libx11-data all 2:1.6.7-1 [298 kB] Get: 49 http://cdn-fastly.deb.debian.org/debian buster/main i386 libx11-6 i386 2:1.6.7-1 [778 kB] Get: 50 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxext6 i386 2:1.3.3-1+b2 [55.2 kB] Get: 51 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-glx0 i386 1.13.1-2 [117 kB] Get: 52 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxfixes3 i386 1:5.0.3-1 [22.4 kB] Get: 53 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxdamage1 i386 1:1.1.4-3+b3 [15.0 kB] Get: 54 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxxf86vm1 i386 1:1.1.4-1+b2 [21.7 kB] Get: 55 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdrm-amdgpu1 i386 2.4.97-1 [30.1 kB] Get: 56 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpciaccess0 i386 0.14-1 [55.7 kB] Get: 57 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdrm-intel1 i386 2.4.97-1 [72.9 kB] Get: 58 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdrm-nouveau2 i386 2.4.97-1 [28.0 kB] Get: 59 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdrm-radeon1 i386 2.4.97-1 [32.5 kB] Get: 60 http://cdn-fastly.deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 61 http://cdn-fastly.deb.debian.org/debian buster/main i386 libedit2 i386 3.1-20181209-1 [98.2 kB] Get: 62 http://cdn-fastly.deb.debian.org/debian buster/main i386 libllvm7 i386 1:7.0.1-8 [13.0 MB] Get: 63 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsensors-config all 1:3.5.0-3 [31.6 kB] Get: 64 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsensors5 i386 1:3.5.0-3 [53.5 kB] Get: 65 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgl1-mesa-dri i386 18.3.6-2 [7096 kB] Get: 66 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglx-mesa0 i386 18.3.6-2 [188 kB] Get: 67 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglx0 i386 1.1.0-1 [31.3 kB] Get: 68 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgl1 i386 1.1.0-1 [83.1 kB] Get: 69 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgraphite2-3 i386 1.3.13-7 [84.0 kB] Get: 70 http://cdn-fastly.deb.debian.org/debian buster/main i386 libharfbuzz0b i386 2.3.1-1 [1209 kB] Get: 71 http://cdn-fastly.deb.debian.org/debian buster/main i386 lsb-base all 10.2019051400 [28.4 kB] Get: 72 http://cdn-fastly.deb.debian.org/debian buster/main i386 x11-common all 1:7.7+19 [251 kB] Get: 73 http://cdn-fastly.deb.debian.org/debian buster/main i386 libice6 i386 2:1.0.9-2 [61.1 kB] Get: 74 http://cdn-fastly.deb.debian.org/debian buster/main i386 libevdev2 i386 1.6.0+dfsg-1 [29.8 kB] Get: 75 http://cdn-fastly.deb.debian.org/debian buster/main i386 libmtdev1 i386 1.1.5-1+b1 [22.9 kB] Get: 76 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgudev-1.0-0 i386 232-2 [14.2 kB] Get: 77 http://cdn-fastly.deb.debian.org/debian buster/main i386 libwacom-common all 0.32-1 [39.1 kB] Get: 78 http://cdn-fastly.deb.debian.org/debian buster/main i386 libwacom2 i386 0.32-1 [20.0 kB] Get: 79 http://cdn-fastly.deb.debian.org/debian buster/main i386 libinput-bin i386 1.12.6-2 [16.9 kB] Get: 80 http://cdn-fastly.deb.debian.org/debian buster/main i386 libinput10 i386 1.12.6-2 [118 kB] Get: 81 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdbus-1-3 i386 1.12.16-1 [226 kB] Get: 82 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5dbus5 i386 5.11.3+dfsg1-1 [258 kB] Get: 83 http://cdn-fastly.deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1c-1 [1532 kB] Get: 84 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5network5 i386 5.11.3+dfsg1-1 [762 kB] Get: 85 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsm6 i386 2:1.2.3-1 [35.7 kB] Get: 86 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-icccm4 i386 0.4.1-1.1 [28.1 kB] Get: 87 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-shm0 i386 1.13.1-2 [99.4 kB] Get: 88 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-util0 i386 0.3.8-3+b2 [23.3 kB] Get: 89 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-image0 i386 0.4.0-1+b2 [24.8 kB] Get: 90 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-keysyms1 i386 0.4.0-1+b2 [16.7 kB] Get: 91 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-randr0 i386 1.13.1-2 [112 kB] Get: 92 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-render0 i386 1.13.1-2 [110 kB] Get: 93 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-render-util0 i386 0.3.9-1+b1 [18.7 kB] Get: 94 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-shape0 i386 1.13.1-2 [99.7 kB] Get: 95 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-xinerama0 i386 1.13.1-2 [99.0 kB] Get: 96 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-xkb1 i386 1.13.1-2 [126 kB] Get: 97 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxi6 i386 2:1.7.9-1 [85.2 kB] Get: 98 http://cdn-fastly.deb.debian.org/debian buster/main i386 xkb-data all 2.26-2 [681 kB] Get: 99 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxkbcommon0 i386 0.8.2-1 [128 kB] Get: 100 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxkbcommon-x11-0 i386 0.8.2-1 [40.5 kB] Get: 101 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxrender1 i386 1:0.9.10-1 [34.1 kB] Get: 102 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5gui5 i386 5.11.3+dfsg1-1 [4844 kB] Get: 103 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5positioning5 i386 5.11.3+dfsg-2 [214 kB] Get: 104 http://cdn-fastly.deb.debian.org/debian buster/main i386 libavahi-common-data i386 0.7-4+b1 [122 kB] Get: 105 http://cdn-fastly.deb.debian.org/debian buster/main i386 libavahi-common3 i386 0.7-4+b1 [56.2 kB] Get: 106 http://cdn-fastly.deb.debian.org/debian buster/main i386 libavahi-client3 i386 0.7-4+b1 [60.1 kB] Get: 107 http://cdn-fastly.deb.debian.org/debian buster/main i386 libkeyutils1 i386 1.6-6 [15.4 kB] Get: 108 http://cdn-fastly.deb.debian.org/debian buster/main i386 libkrb5support0 i386 1.17-3 [68.6 kB] Get: 109 http://cdn-fastly.deb.debian.org/debian buster/main i386 libk5crypto3 i386 1.17-3 [126 kB] Get: 110 http://cdn-fastly.deb.debian.org/debian buster/main i386 libkrb5-3 i386 1.17-3 [396 kB] Get: 111 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgssapi-krb5-2 i386 1.17-3 [168 kB] Get: 112 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcups2 i386 2.2.10-6 [338 kB] Get: 113 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5widgets5 i386 5.11.3+dfsg1-1 [2536 kB] Get: 114 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5printsupport5 i386 5.11.3+dfsg1-1 [234 kB] Get: 115 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5qml5 i386 5.11.3-4 [1371 kB] Get: 116 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5quick5 i386 5.11.3-4 [1414 kB] Get: 117 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5sensors5 i386 5.11.3-2 [124 kB] Get: 118 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5webchannel5 i386 5.11.3-2 [53.7 kB] Get: 119 http://cdn-fastly.deb.debian.org/debian buster/main i386 libwebp6 i386 0.6.1-2 [275 kB] Get: 120 http://cdn-fastly.deb.debian.org/debian buster/main i386 libbrotli1 i386 1.0.7-2 [267 kB] Get: 121 http://cdn-fastly.deb.debian.org/debian buster/main i386 libwoff1 i386 1.0.2-1 [46.0 kB] Get: 122 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 123 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxslt1.1 i386 1.1.32-2 [247 kB] Get: 124 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5webkit5 i386 5.212.0~alpha2-21 [12.2 MB] Get: 125 http://cdn-fastly.deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4 [242 kB] Get: 126 http://cdn-fastly.deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4 [124 kB] Get: 127 http://cdn-fastly.deb.debian.org/debian buster/main i386 file i386 1:5.35-4 [66.3 kB] Get: 128 http://cdn-fastly.deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 129 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 130 http://cdn-fastly.deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 131 http://cdn-fastly.deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 132 http://cdn-fastly.deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 133 http://cdn-fastly.deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 134 http://cdn-fastly.deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 135 http://cdn-fastly.deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 136 http://cdn-fastly.deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 137 http://cdn-fastly.deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 138 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 139 http://cdn-fastly.deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 140 http://cdn-fastly.deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 141 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 142 http://cdn-fastly.deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2 [109 kB] Get: 143 http://cdn-fastly.deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 144 http://cdn-fastly.deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 145 http://cdn-fastly.deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 146 http://cdn-fastly.deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 147 http://cdn-fastly.deb.debian.org/debian buster/main i386 libclang1-7 i386 1:7.0.1-8 [5912 kB] Get: 148 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdrm-dev i386 2.4.97-1 [131 kB] Get: 149 http://cdn-fastly.deb.debian.org/debian buster/main i386 xorg-sgml-doctools all 1:1.11-1 [21.9 kB] Get: 150 http://cdn-fastly.deb.debian.org/debian buster/main i386 x11proto-dev all 2018.4-4 [251 kB] Get: 151 http://cdn-fastly.deb.debian.org/debian buster/main i386 x11proto-core-dev all 2018.4-4 [3128 B] Get: 152 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxau-dev i386 1:1.0.8-1+b2 [23.6 kB] Get: 153 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxdmcp-dev i386 1:1.1.2-3 [42.7 kB] Get: 154 http://cdn-fastly.deb.debian.org/debian buster/main i386 xtrans-dev all 1.3.5-1 [100 kB] Get: 155 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpthread-stubs0-dev i386 0.4-1 [5340 B] Get: 156 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb1-dev i386 1.13.1-2 [180 kB] Get: 157 http://cdn-fastly.deb.debian.org/debian buster/main i386 libx11-dev i386 2:1.6.7-1 [856 kB] Get: 158 http://cdn-fastly.deb.debian.org/debian buster/main i386 mesa-common-dev i386 18.3.6-2 [611 kB] Get: 159 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglvnd-core-dev i386 1.1.0-1 [13.2 kB] Get: 160 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgles1 i386 1.1.0-1 [13.9 kB] Get: 161 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgles2 i386 1.1.0-1 [18.8 kB] Get: 162 http://cdn-fastly.deb.debian.org/debian buster/main i386 libopengl0 i386 1.1.0-1 [31.0 kB] Get: 163 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglvnd-dev i386 1.1.0-1 [5128 B] Get: 164 http://cdn-fastly.deb.debian.org/debian buster/main i386 libx11-xcb-dev i386 2:1.6.7-1 [192 kB] Get: 165 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-dri3-dev i386 1.13.1-2 [101 kB] Get: 166 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-render0-dev i386 1.13.1-2 [113 kB] Get: 167 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-randr0-dev i386 1.13.1-2 [116 kB] Get: 168 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-shape0-dev i386 1.13.1-2 [101 kB] Get: 169 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-xfixes0-dev i386 1.13.1-2 [106 kB] Get: 170 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-sync-dev i386 1.13.1-2 [105 kB] Get: 171 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-present-dev i386 1.13.1-2 [101 kB] Get: 172 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxshmfence-dev i386 1.3-1 [8560 B] Get: 173 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-dri2-0-dev i386 1.13.1-2 [102 kB] Get: 174 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-glx0-dev i386 1.13.1-2 [123 kB] Get: 175 http://cdn-fastly.deb.debian.org/debian buster/main i386 x11proto-fixes-dev all 1:2018.4-4 [3140 B] Get: 176 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxfixes-dev i386 1:5.0.3-1 [24.3 kB] Get: 177 http://cdn-fastly.deb.debian.org/debian buster/main i386 x11proto-damage-dev all 1:2018.4-4 [3140 B] Get: 178 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxdamage-dev i386 1:1.1.4-3+b3 [14.9 kB] Get: 179 http://cdn-fastly.deb.debian.org/debian buster/main i386 x11proto-xext-dev all 2018.4-4 [3128 B] Get: 180 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxext-dev i386 2:1.3.3-1+b2 [110 kB] Get: 181 http://cdn-fastly.deb.debian.org/debian buster/main i386 x11proto-xf86vidmode-dev all 2018.4-4 [3140 B] Get: 182 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxxf86vm-dev i386 1:1.1.4-1+b2 [26.3 kB] Get: 183 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgl1-mesa-dev i386 18.3.6-2 [47.9 kB] Get: 184 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglu1-mesa i386 9.0.0-2.1+b3 [179 kB] Get: 185 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglu1-mesa-dev i386 9.0.0-2.1+b3 [223 kB] Get: 186 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5concurrent5 i386 5.11.3+dfsg1-1 [57.7 kB] Get: 187 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5xml5 i386 5.11.3+dfsg1-1 [138 kB] Get: 188 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5designer5 i386 5.11.3-4 [2907 kB] Get: 189 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5designercomponents5 i386 5.11.3-4 [800 kB] Get: 190 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5sql5 i386 5.11.3+dfsg1-1 [157 kB] Get: 191 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5help5 i386 5.11.3-4 [170 kB] Get: 192 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5quickwidgets5 i386 5.11.3-4 [53.4 kB] Get: 193 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5sql5-sqlite i386 5.11.3+dfsg1-1 [74.1 kB] Get: 194 http://cdn-fastly.deb.debian.org/debian buster/main i386 libqt5test5 i386 5.11.3+dfsg1-1 [156 kB] Get: 195 http://cdn-fastly.deb.debian.org/debian buster/main i386 libvulkan1 i386 1.1.97-2 [102 kB] Get: 196 http://cdn-fastly.deb.debian.org/debian buster/main i386 libvulkan-dev i386 1.1.97-2 [390 kB] Get: 197 http://cdn-fastly.deb.debian.org/debian buster/main i386 qtchooser i386 66-2 [27.8 kB] Get: 198 http://cdn-fastly.deb.debian.org/debian buster/main i386 qdoc-qt5 i386 5.11.3-4 [539 kB] Get: 199 http://cdn-fastly.deb.debian.org/debian buster/main i386 qt5-assistant i386 5.11.3-4 [783 kB] Get: 200 http://cdn-fastly.deb.debian.org/debian buster/main i386 qt5-qmake-bin i386 5.11.3+dfsg1-1 [1089 kB] Get: 201 http://cdn-fastly.deb.debian.org/debian buster/main i386 qt5-qmake i386 5.11.3+dfsg1-1 [212 kB] Get: 202 http://cdn-fastly.deb.debian.org/debian buster/main i386 qtbase5-dev-tools i386 5.11.3+dfsg1-1 [855 kB] Get: 203 http://cdn-fastly.deb.debian.org/debian buster/main i386 qtbase5-dev i386 5.11.3+dfsg1-1 [1015 kB] Get: 204 http://cdn-fastly.deb.debian.org/debian buster/main i386 qttools5-dev-tools i386 5.11.3-4 [1186 kB] Fetched 108 MB in 53s (2021 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19231 files and directories currently installed.) Preparing to unpack .../000-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../001-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../002-libuchardet0_0.0.6-3_i386.deb ... Unpacking libuchardet0:i386 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../003-groff-base_1.22.4-3_i386.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../004-libpipeline1_1.5.1-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../005-man-db_2.8.5-2_i386.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../006-libglib2.0-0_2.58.3-2_i386.deb ... Unpacking libglib2.0-0:i386 (2.58.3-2) ... Selecting previously unselected package libcap2:i386. Preparing to unpack .../007-libcap2_1%3a2.25-2_i386.deb ... Unpacking libcap2:i386 (1:2.25-2) ... Selecting previously unselected package libcap2-bin. Preparing to unpack .../008-libcap2-bin_1%3a2.25-2_i386.deb ... Unpacking libcap2-bin (1:2.25-2) ... Selecting previously unselected package libgstreamer1.0-0:i386. Preparing to unpack .../009-libgstreamer1.0-0_1.14.4-1_i386.deb ... Unpacking libgstreamer1.0-0:i386 (1.14.4-1) ... Selecting previously unselected package liborc-0.4-0:i386. Preparing to unpack .../010-liborc-0.4-0_1%3a0.4.28-3.1_i386.deb ... Unpacking liborc-0.4-0:i386 (1:0.4.28-3.1) ... Selecting previously unselected package iso-codes. Preparing to unpack .../011-iso-codes_4.2-1_all.deb ... Unpacking iso-codes (4.2-1) ... Selecting previously unselected package libgstreamer-plugins-base1.0-0:i386. Preparing to unpack .../012-libgstreamer-plugins-base1.0-0_1.14.4-2_i386.deb ... Unpacking libgstreamer-plugins-base1.0-0:i386 (1.14.4-2) ... Selecting previously unselected package libhyphen0:i386. Preparing to unpack .../013-libhyphen0_2.8.8-7_i386.deb ... Unpacking libhyphen0:i386 (2.8.8-7) ... Selecting previously unselected package libicu63:i386. Preparing to unpack .../014-libicu63_63.1-6_i386.deb ... Unpacking libicu63:i386 (63.1-6) ... Selecting previously unselected package libjpeg62-turbo:i386. Preparing to unpack .../015-libjpeg62-turbo_1%3a1.5.2-2+b1_i386.deb ... Unpacking libjpeg62-turbo:i386 (1:1.5.2-2+b1) ... Selecting previously unselected package libpng16-16:i386. Preparing to unpack .../016-libpng16-16_1.6.36-6_i386.deb ... Unpacking libpng16-16:i386 (1.6.36-6) ... Selecting previously unselected package libdouble-conversion1:i386. Preparing to unpack .../017-libdouble-conversion1_3.1.0-3_i386.deb ... Unpacking libdouble-conversion1:i386 (3.1.0-3) ... Selecting previously unselected package libpcre2-16-0:i386. Preparing to unpack .../018-libpcre2-16-0_10.32-5_i386.deb ... Unpacking libpcre2-16-0:i386 (10.32-5) ... Selecting previously unselected package libqt5core5a:i386. Preparing to unpack .../019-libqt5core5a_5.11.3+dfsg1-1_i386.deb ... Unpacking libqt5core5a:i386 (5.11.3+dfsg1-1) ... Selecting previously unselected package libexpat1:i386. 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Setting up libtool (2.4.6-9) ... Setting up libxcb-render0:i386 (1.13.1-2) ... Setting up libxshmfence-dev:i386 (1.3-1) ... Setting up libxcb-glx0:i386 (1.13.1-2) ... Setting up libedit2:i386 (3.1-20181209-1) ... Setting up libxcb-keysyms1:i386 (0.4.0-1+b2) ... Setting up libxcb-shape0:i386 (1.13.1-2) ... Setting up libavahi-common3:i386 (0.7-4+b1) ... Setting up m4 (1.4.18-2) ... Setting up libxcb-render-util0:i386 (0.3.9-1+b1) ... Setting up libgstreamer-plugins-base1.0-0:i386 (1.14.4-2) ... Setting up libxcb-shm0:i386 (1.13.1-2) ... Setting up libxcb-icccm4:i386 (0.4.1-1.1) ... Setting up libxcb-util0:i386 (0.3.8-3+b2) ... Setting up libxcb-xkb1:i386 (1.13.1-2) ... Setting up libxcb-image0:i386 (0.4.0-1+b2) ... Setting up libxcb-present0:i386 (1.13.1-2) ... Setting up libxdmcp-dev:i386 (1:1.1.2-3) ... Setting up libxcb-xinerama0:i386 (1.13.1-2) ... Setting up x11proto-damage-dev (1:2018.4-4) ... Setting up libfreetype6:i386 (2.9.1-3) ... Setting up libxcb-sync1:i386 (1.13.1-2) ... Setting up x11proto-core-dev (2018.4-4) ... Setting up bsdmainutils (11.1.2+b1) ... 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 libxkbcommon-x11-0:i386 (0.8.2-1) ... Setting up libgssapi-krb5-2:i386 (1.17-3) ... Setting up libcroco3:i386 (0.6.12-3) ... Setting up ucf (3.0038+nmu1) ... Setting up libqt5core5a:i386 (5.11.3+dfsg1-1) ... Setting up autoconf (2.69-11) ... Setting up libxcb-dri2-0:i386 (1.13.1-2) ... Setting up x11proto-xf86vidmode-dev (2018.4-4) ... Setting up x11proto-xext-dev (2018.4-4) ... Setting up libdrm2:i386 (2.4.97-1) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up libqt5dbus5:i386 (5.11.3+dfsg1-1) ... Setting up libxcb-randr0:i386 (1.13.1-2) ... Setting up libxslt1.1:i386 (1.1.32-2) ... Setting up libllvm7:i386 (1:7.0.1-8) ... Setting up libx11-6:i386 (2:1.6.7-1) ... Setting up libharfbuzz0b:i386 (2.3.1-1) ... Setting up libclang1-7 (1:7.0.1-8) ... Setting up libqt5sensors5:i386 (5.11.3-2) ... Setting up x11proto-fixes-dev (1:2018.4-4) ... Setting up libqt5test5:i386 (5.11.3+dfsg1-1) ... Setting up libwacom2:i386 (0.32-1) ... Setting up libsm6:i386 (2:1.2.3-1) ... Setting up libqt5concurrent5:i386 (5.11.3+dfsg1-1) ... Setting up libavahi-client3:i386 (0.7-4+b1) ... Setting up libdrm-amdgpu1:i386 (2.4.97-1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libxcb-dri3-0:i386 (1.13.1-2) ... Setting up libdrm-nouveau2:i386 (2.4.97-1) ... Setting up gettext (0.19.8.1-9) ... Setting up libxcb1-dev:i386 (1.13.1-2) ... Setting up libxrender1:i386 (1:0.9.10-1) ... Setting up libgbm1:i386 (18.3.6-2) ... Setting up libdrm-radeon1:i386 (2.4.97-1) ... Setting up fontconfig-config (2.13.1-2) ... Setting up qdoc-qt5 (5.11.3-4) ... Setting up libqt5positioning5:i386 (5.11.3+dfsg-2) ... Setting up libdrm-intel1:i386 (2.4.97-1) ... Setting up libgl1-mesa-dri:i386 (18.3.6-2) ... Setting up libx11-dev:i386 (2:1.6.7-1) ... Setting up libxext6:i386 (2:1.3.3-1+b2) ... Setting up libxcb-dri3-dev:i386 (1.13.1-2) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libqt5network5:i386 (5.11.3+dfsg1-1) ... Setting up libxxf86vm1:i386 (1:1.1.4-1+b2) ... Setting up libinput-bin (1.12.6-2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libqt5sql5:i386 (5.11.3+dfsg1-1) ... Setting up qtbase5-dev-tools (5.11.3+dfsg1-1) ... Setting up libqt5xml5:i386 (5.11.3+dfsg1-1) ... Setting up libegl-mesa0:i386 (18.3.6-2) ... Setting up libxcb-dri2-0-dev:i386 (1.13.1-2) ... Setting up libxfixes3:i386 (1:5.0.3-1) ... Setting up libqt5qml5:i386 (5.11.3-4) ... Setting up libqt5webchannel5:i386 (5.11.3-2) ... Setting up libxcb-render0-dev:i386 (1.13.1-2) ... Setting up libxcb-glx0-dev:i386 (1.13.1-2) ... Setting up libxcb-shape0-dev:i386 (1.13.1-2) ... Setting up libxext-dev:i386 (2:1.3.3-1+b2) ... Setting up libcups2:i386 (2.2.10-6) ... Setting up libegl1:i386 (1.1.0-1) ... Setting up libxcb-sync-dev:i386 (1.13.1-2) ... Setting up libxcb-xfixes0-dev:i386 (1.13.1-2) ... Setting up libfontconfig1:i386 (2.13.1-2) ... Setting up libinput10:i386 (1.12.6-2) ... Setting up libx11-xcb-dev:i386 (2:1.6.7-1) ... Setting up fontconfig (2.13.1-2) ... Regenerating fonts cache... done. Setting up libdrm-dev:i386 (2.4.97-1) ... Setting up libxdamage1:i386 (1:1.1.4-3+b3) ... Setting up libqt5sql5-sqlite:i386 (5.11.3+dfsg1-1) ... Setting up libxi6:i386 (2:1.7.9-1) ... Setting up po-debconf (1.0.21) ... Setting up libxxf86vm-dev:i386 (1:1.1.4-1+b2) ... Setting up libxfixes-dev:i386 (1:5.0.3-1) ... Setting up libxcb-randr0-dev:i386 (1.13.1-2) ... Setting up libxcb-present-dev:i386 (1.13.1-2) ... Setting up mesa-common-dev:i386 (18.3.6-2) ... Setting up libxdamage-dev:i386 (1:1.1.4-3+b3) ... Setting up libglx-mesa0:i386 (18.3.6-2) ... Setting up libglx0:i386 (1.1.0-1) ... Setting up libgl1:i386 (1.1.0-1) ... Setting up libglu1-mesa:i386 (9.0.0-2.1+b3) ... Setting up libqt5gui5:i386 (5.11.3+dfsg1-1) ... Setting up libglvnd-dev:i386 (1.1.0-1) ... Setting up libqt5widgets5:i386 (5.11.3+dfsg1-1) ... Setting up libqt5help5:i386 (5.11.3-4) ... Setting up libqt5printsupport5:i386 (5.11.3+dfsg1-1) ... Setting up libgl1-mesa-dev:i386 (18.3.6-2) ... Setting up libqt5quick5:i386 (5.11.3-4) ... Setting up libqt5designer5:i386 (5.11.3-4) ... Setting up libqt5webkit5:i386 (5.212.0~alpha2-21) ... Setting up libqt5designercomponents5:i386 (5.11.3-4) ... Setting up libqt5quickwidgets5:i386 (5.11.3-4) ... Setting up libglu1-mesa-dev:i386 (9.0.0-2.1+b3) ... Setting up qtbase5-dev:i386 (5.11.3+dfsg1-1) ... Setting up qt5-assistant (5.11.3-4) ... Setting up qttools5-dev-tools (5.11.3-4) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/clustalx-2.1+lgpl/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package clustalx dpkg-buildpackage: info: source version 2.1+lgpl-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean dh_auto_clean debian/rules override_dh_clean make[1]: Entering directory '/build/clustalx-2.1+lgpl' rm -f moc_* dh_clean make[1]: Leaving directory '/build/clustalx-2.1+lgpl' debian/rules build dh build dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/clustalx-2.1+lgpl' dh_auto_configure qmake -makefile "QMAKE_CFLAGS_RELEASE=-g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_CFLAGS_DEBUG=-g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_CXXFLAGS_RELEASE=-g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_CXXFLAGS_DEBUG=-g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_LFLAGS_RELEASE=-Wl,-z,relro -Wl,-z,now" "QMAKE_LFLAGS_DEBUG=-Wl,-z,relro -Wl,-z,now" QMAKE_STRIP=: PREFIX=/usr Info: creating stash file /build/clustalx-2.1+lgpl/.qmake.stash # did not found a better way to push hardening flags into Makefile sed -i -e "s:CFLAGS *= .*:& -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security:" \ -e "s:CXXFLAGS *= .*:& -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security:" \ -e "s:LFLAGS *= .*:& -Wl,-z,relro -Wl,-z,now:" Makefile make[1]: Leaving directory '/build/clustalx-2.1+lgpl' dh_auto_build make -j10 make[1]: Entering directory '/build/clustalx-2.1+lgpl' g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o AlignmentFormatOptions.o AlignmentFormatOptions.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o AlignmentParameters.o AlignmentParameters.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o AlignmentViewerWidget.o AlignmentViewerWidget.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o AlignmentWidget.o AlignmentWidget.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o AlignOutputFileNames.o AlignOutputFileNames.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o BootstrapTreeDialog.o BootstrapTreeDialog.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ColorFileXmlParser.o ColorFileXmlParser.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ColorParameters.o ColorParameters.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ColumnScoreParams.o ColumnScoreParams.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o FileDialog.o FileDialog.cpp ColorFileXmlParser.cpp:74:13: warning: multi-line comment [-Wcomment] // tr("colorrules not found in the parameter file, using\ ^ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from HardCodedColorScheme.h:8, from ColorParameters.h:11, from ColorParameters.cpp:1: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ ColorParameters.cpp: In member function 'QColor ColorParameters::getResidueColor(QChar, QChar)': ColorParameters.cpp:160:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] for(i = 0; i < colorPar.size(); i++) ~~^~~~~~~~~~~~~~~~~ ColorParameters.cpp:174:26: warning: unused variable 'temp' [-Wunused-variable] char temp = colorPar[i].consensusConditionList[j].toLatin1(); ^~~~ ColorParameters.cpp:157:10: warning: unused variable 'showRes' [-Wunused-variable] char showRes = res.toLatin1(); ^~~~~~~ ColorParameters.cpp:158:10: warning: unused variable 'showCon' [-Wunused-variable] char showCon = consensus.toLatin1(); ^~~~~~~ ColorParameters.cpp: In member function 'int ColorParameters::getResidueColorNum(QChar, QChar)': ColorParameters.cpp:197:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] for(i = 0; i < colorPar.size(); i++) ~~^~~~~~~~~~~~~~~~~ ColorParameters.cpp:211:26: warning: unused variable 'temp' [-Wunused-variable] char temp = colorPar[i].consensusConditionList[j].toLatin1(); ^~~~ ColorParameters.cpp:194:10: warning: unused variable 'showRes' [-Wunused-variable] char showRes = res.toLatin1(); ^~~~~~~ ColorParameters.cpp:195:10: warning: unused variable 'showCon' [-Wunused-variable] char showCon = consensus.toLatin1(); ^~~~~~~ ColorParameters.cpp: In member function 'void ColorParameters::printColorInfo()': ColorParameters.cpp:229:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int i = 0; i < colors.size(); i++) ~~^~~~~~~~~~~~~~~ ColorParameters.cpp: In member function 'int ColorParameters::getIndexOfColor(QColor)': ColorParameters.cpp:238:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int i = 0; i < colors.size(); i++) ~~^~~~~~~~~~~~~~~ ColorParameters.cpp: In member function 'QColor ColorParameters::getColorFromNum(int)': ColorParameters.cpp:251:37: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] if(colorNum > 0 && colorNum - 1 < colorPar.size()) ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o HardCodedColorScheme.o HardCodedColorScheme.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o HelpDisplayWidget.o HelpDisplayWidget.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from AlignmentWidget.h:41, from AlignmentWidget.cpp:49: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from AlignmentWidget.cpp:49: AlignmentWidget.h: In constructor 'AlignmentWidget::AlignmentWidget(int, int, QFont*, QWidget*)': AlignmentWidget.h:170:10: warning: 'AlignmentWidget::blackAndWhite' will be initialized after [-Wreorder] bool blackAndWhite; ^~~~~~~~~~~~~ AlignmentWidget.h:161:27: warning: 'std::vector >* AlignmentWidget::selectedColoredRes' [-Wreorder] std::vector* selectedColoredRes; ^~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:65:1: warning: when initialized here [-Wreorder] AlignmentWidget::AlignmentWidget(int boxwidth, int boxsize, QFont* font, QWidget *parent) ^~~~~~~~~~~~~~~ AlignmentWidget.cpp: In member function 'void AlignmentWidget::calculatePixMaps()': AlignmentWidget.cpp:225:35: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] for(unsigned int j = 0; j < lengthLongestSeq; j++) ~~^~~~~~~~~~~~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from HardCodedColorScheme.h:8, from HardCodedColorScheme.cpp:1: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ AlignmentWidget.cpp:235:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] if(code >= 0 && code < conservationPixmaps->size()) ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:268:51: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] if(codeForAA >=0 && codeForAA < lowScoreColoredRes->size()) ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:280:51: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] if(codeForAA >=0 && codeForAA < exceptionalColoredRes->size()) ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:291:86: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] if(colMask.getRowSize() > (i - extraRow) && colMask.getColSize() > j) ~~~~~~~~~~~~~~~~~~~~~^~~ AlignmentWidget.cpp:215:9: warning: unused variable 'codeForSpace' [-Wunused-variable] int codeForSpace = clustalw::userParameters->resIndex( ^~~~~~~~~~~~ AlignmentWidget.cpp: In member function 'void AlignmentWidget::generateSecStructurePixmaps()': AlignmentWidget.cpp:333:14: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] if(i < secStructPixmaps->size() && i < secStructInfo.size()) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp: In member function 'void AlignmentWidget::drawContents(QPainter*, int, int, int, int)': AlignmentWidget.cpp:569:36: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] if(selectedRes >= selectedColoredRes->size()) ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp: In member function 'void AlignmentWidget::calcConserveInfo()': AlignmentWidget.cpp:689:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int j = 1; j <= strongGroup.size(); j++) ~~^~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:693:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int j = 1; j <= weakGroup.size(); j++) ~~^~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:700:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] if((i + _fRes - 1 < (*alignment)[j].size()) && ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:701:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] (i + _fRes - 1 < (*alignment)[_fSeq].size())) ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:725:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int k = 1; k <= strongGroup.size(); k++) ~~^~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:737:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int k = 1; k <= weakGroup.size(); k++) ~~^~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:760:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int k = 1; k <= strongGroup.size(); k++) ~~^~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp:771:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int k = 1; k <= weakGroup.size(); k++) ~~^~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp: In member function 'void AlignmentWidget::makeColorMask(clustalw::Array2D*, ColorParameters*)': AlignmentWidget.cpp:878:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] if(res + 1 < (*alignment)[currentSeq].size() && (lastSeq >= currentSeq)) ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp: In member function 'QString AlignmentWidget::initConsensus()': AlignmentWidget.cpp:927:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] if(res + 1 < (*alignment)[currentSeq].size() && (lastSeq >= currentSeq)) ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ AlignmentWidget.cpp: In member function 'void AlignmentWidget::generatePixMaps()': AlignmentWidget.cpp:1039:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int j = 0; j < aminoAcid.size(); j++) ~~^~~~~~~~~~~~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from HardCodedColorScheme.h:8, from ColorParameters.h:11, from ColorFileXmlParser.h:9, from ColorFileXmlParser.cpp:3: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ ColorFileXmlParser.cpp: In member function 'int ColorFileXmlParser::parseRGBIndex(const QDomElement&, QTreeWidgetItem*)': ColorFileXmlParser.cpp:85:46: warning: unused parameter 'parentItem' [-Wunused-parameter] QTreeWidgetItem *parentItem) ~~~~~~~~~~~~~~~~~^~~~~~~~~~ ColorFileXmlParser.cpp: In member function 'void ColorFileXmlParser::parseConsensus(const QDomElement&, QTreeWidgetItem*)': ColorFileXmlParser.cpp:138:86: warning: unused parameter 'parentItem' [-Wunused-parameter] void ColorFileXmlParser::parseConsensus(const QDomElement &element, QTreeWidgetItem *parentItem) ~~~~~~~~~~~~~~~~~^~~~~~~~~~ ColorFileXmlParser.cpp: In member function 'int ColorFileXmlParser::parseColorRule(const QDomElement&, QTreeWidgetItem*)': ColorFileXmlParser.cpp:175:85: warning: unused parameter 'parentItem' [-Wunused-parameter] int ColorFileXmlParser::parseColorRule(const QDomElement &element, QTreeWidgetItem *parentItem) ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from BootstrapTreeDialog.h:11, from BootstrapTreeDialog.cpp:18: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from BootstrapTreeDialog.cpp:18: BootstrapTreeDialog.h:70:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr treeFileNames; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from BootstrapTreeDialog.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from AlignOutputFileNames.h:10, from AlignOutputFileNames.cpp:26: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o HistogramWidget.o HistogramWidget.cpp In file included from AlignOutputFileNames.cpp:26: AlignOutputFileNames.h:106:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr outFileNames; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignOutputFileNames.cpp:23: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/substitutionMatrix/globalmatrix.h:8, from AlignmentParameters.cpp:22: clustalW/substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ AlignmentParameters.cpp: In member function 'virtual void AlignmentParameters::showEvent(QShowEvent*)': AlignmentParameters.cpp:48:49: warning: unused parameter 'event' [-Wunused-parameter] void AlignmentParameters::showEvent(QShowEvent* event) ~~~~~~~~~~~~^~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from HelpDisplayWidget.h:18, from HelpDisplayWidget.cpp:15: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/substitutionMatrix/globalmatrix.h:8, from ColumnScoreParams.cpp:23: clustalW/substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ ColumnScoreParams.cpp: In member function 'virtual void ColumnScoreParams::showEvent(QShowEvent*)': ColumnScoreParams.cpp:51:47: warning: unused parameter 'event' [-Wunused-parameter] void ColumnScoreParams::showEvent(QShowEvent* event) ~~~~~~~~~~~~^~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from AlignmentViewerWidget.h:36, from AlignmentViewerWidget.cpp:66: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from AlignmentViewerWidget.cpp:68: clustalW/alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignmentViewerWidget.cpp:63: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from AlignmentViewerWidget.cpp:68: clustalW/alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignmentViewerWidget.cpp:63: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from AlignmentViewerWidget.cpp:68: clustalW/alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignmentViewerWidget.cpp:63: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from AlignmentViewerWidget.cpp:68: clustalW/alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignmentViewerWidget.cpp:63: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from AlignmentViewerWidget.cpp:68: clustalW/alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignmentViewerWidget.cpp:63: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from AlignmentViewerWidget.cpp:68: clustalW/alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignmentViewerWidget.cpp:63: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from AlignmentViewerWidget.cpp:68: clustalW/alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignmentViewerWidget.cpp:63: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from AlignmentViewerWidget.cpp:68: clustalW/alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignmentViewerWidget.cpp:63: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from AlignmentViewerWidget.cpp:68: clustalW/alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from AlignmentViewerWidget.cpp:63: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ AlignmentViewerWidget.cpp: In member function 'int AlignmentViewerWidget::makeGapPenaltyData()': AlignmentViewerWidget.cpp:588:37: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] for(i = 0; i < len && i < gapMask->size(); i++) ~~^~~~~~~~~~~~~~~~~ AlignmentViewerWidget.cpp: In member function 'int AlignmentViewerWidget::makeSecStructData()': AlignmentViewerWidget.cpp:645:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] for (i = 0; i < len && i < _secStructMask->size();i++) ~~^~~~~~~~~~~~~~~~~~~~~~~~ AlignmentViewerWidget.cpp:652:37: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] for(i = 0; i < len && i < ssMask.size(); i++) ~~^~~~~~~~~~~~~~~ AlignmentViewerWidget.cpp: In member function 'virtual void AlignmentViewerWidget::resizeEvent(QResizeEvent*)': AlignmentViewerWidget.cpp:781:58: warning: unused parameter 'event' [-Wunused-parameter] void AlignmentViewerWidget::resizeEvent ( QResizeEvent * event ) ~~~~~~~~~~~~~~~^~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o KeyController.o KeyController.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o LowScoringSegParams.o LowScoringSegParams.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o main.o main.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o mainwindow.o mainwindow.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o PairwiseParams.o PairwiseParams.cpp HelpDisplayWidget.cpp: In member function 'std::__cxx11::string* HelpDisplayWidget::loadHelpInformation(char)': HelpDisplayWidget.cpp:147:29: warning: catching polymorphic type 'class std::ios_base::failure' by value [-Wcatch-value=] catch(ifstream::failure e) ^ HelpDisplayWidget.cpp:61:13: warning: variable 'number' set but not used [-Wunused-but-set-variable] int i, number, nlines; ^~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o PostscriptFileParams.o PostscriptFileParams.cpp HistogramWidget.cpp: In member function 'void HistogramWidget::drawContents(QPainter*, int, int, int, int)': HistogramWidget.cpp:180:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] if(column >= 0 && column < arrayOfHeights->size()) ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ HistogramWidget.cpp:198:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] if(column >= 0 && column < arrayOfHeights->size()) ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ProteinGapParameters.o ProteinGapParameters.cpp In file included from main.cpp:21: clustalW/substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o PSPrinter.o PSPrinter.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from PostscriptFileParams.h:4, from PostscriptFileParams.cpp:1: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/Clustal.h:18, from mainwindow.h:45, from main.cpp:24: clustalW/fileInput/FileReader.h:42:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] void checkInfile(int* nseqs, auto_ptr& fileParser); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from main.cpp:24: clustalW/alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from main.cpp:24: clustalW/alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from main.cpp:24: clustalW/alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from main.cpp:24: clustalW/alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from main.cpp:24: clustalW/alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from main.cpp:24: clustalW/alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from main.cpp:24: clustalW/alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from main.cpp:24: clustalW/alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from main.cpp:24: clustalW/alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/substitutionMatrix/../general/SquareMat.h:9, from clustalW/substitutionMatrix/../general/clustalw.h:43, from clustalW/substitutionMatrix/SubMatrix.h:28, from main.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o QTUtility.o QTUtility.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Resources.o Resources.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o SaveSeqFile.o SaveSeqFile.cpp In file included from clustalW/substitutionMatrix/globalmatrix.h:8, from LowScoringSegParams.cpp:22: clustalW/substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ LowScoringSegParams.cpp: In member function 'virtual void LowScoringSegParams::showEvent(QShowEvent*)': LowScoringSegParams.cpp:51:49: warning: unused parameter 'event' [-Wunused-parameter] void LowScoringSegParams::showEvent(QShowEvent* event) ~~~~~~~~~~~~^~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o SearchForString.o SearchForString.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o SecStructOptions.o SecStructOptions.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from mainwindow.cpp:98: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/Clustal.h:18, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/fileInput/FileReader.h:42:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] void checkInfile(int* nseqs, auto_ptr& fileParser); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from mainwindow.cpp:98: clustalW/alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from mainwindow.cpp:99: WritePostscriptFile.h:88:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr params; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from mainwindow.cpp:100: AlignOutputFileNames.h:106:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr outFileNames; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from mainwindow.cpp:101: TreeOutputFileNames.h:73:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr treeFileNames; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from mainwindow.cpp:102: BootstrapTreeDialog.h:70:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr treeFileNames; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from mainwindow.cpp:90: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ mainwindow.cpp: In member function 'virtual void MainWindow::showEvent(QShowEvent*)': mainwindow.cpp:198:40: warning: unused parameter 'event' [-Wunused-parameter] void MainWindow::showEvent(QShowEvent* event) ~~~~~~~~~~~~^~~~~ mainwindow.cpp: In member function 'void MainWindow::writeViewer1AsPostscript(int)': mainwindow.cpp:1454:47: warning: unused parameter 'type' [-Wunused-parameter] void MainWindow::writeViewer1AsPostscript(int type) ~~~~^~~~ In file included from clustalW/substitutionMatrix/globalmatrix.h:8, from PairwiseParams.cpp:23: clustalW/substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ PairwiseParams.cpp: In member function 'virtual void PairwiseParams::showEvent(QShowEvent*)': PairwiseParams.cpp:74:44: warning: unused parameter 'event' [-Wunused-parameter] void PairwiseParams::showEvent(QShowEvent* event) ~~~~~~~~~~~~^~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o SeqNameWidget.o SeqNameWidget.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o TreeFormatOptions.o TreeFormatOptions.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o TreeOutputFileNames.o TreeOutputFileNames.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o WritePostscriptFile.o WritePostscriptFile.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from HardCodedColorScheme.h:8, from ColorParameters.h:11, from PSPrinter.h:11, from PSPrinter.cpp:20: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ PSPrinter.cpp: In member function 'void PSPrinter::writePSFile(PostscriptFileParams*)': PSPrinter.cpp:207:55: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] if(res.isLetter() && resNumber.size() > i - data->firstSeq) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ PSPrinter.cpp:307:67: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] if(res.isLetter() && resNumber.size() > seq) ~~~~~~~~~~~~~~~~~^~~~~ PSPrinter.cpp:421:67: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] if(res.isLetter() && resNumber.size() > i) ~~~~~~~~~~~~~~~~~^~~ PSPrinter.cpp:55:9: warning: unused variable 'err' [-Wunused-variable] int err; ^~~ PSPrinter.cpp:73:9: warning: unused variable 'gapPos1' [-Wunused-variable] int gapPos1 = clustalw::userParameters->getGapPos1(); // Mark: 22-1-2007 new local ^~~~~~~ PSPrinter.cpp:74:9: warning: unused variable 'gapPos2' [-Wunused-variable] int gapPos2 = clustalw::userParameters->getGapPos2(); // Mark: 22-1-2007 new local ^~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Clustal.o clustalW/Clustal.cpp PSPrinter.cpp: In member function 'void PSPrinter::printHeaderLine(std::ofstream*, int, int, int)': PSPrinter.cpp:587:32: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] if(data->nameHeader.size() > ix) ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ PSPrinter.cpp: In member function 'void PSPrinter::printFooterLine(std::ofstream*, int, int)': PSPrinter.cpp:730:30: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} [-Wsign-compare] for(i = fr; i <= lr && i < ruler.length(); i++) ~~^~~~~~~~~~~~~~~~ PSPrinter.cpp: In member function 'void PSPrinter::printQualityCurve(std::ofstream*, int, int, int)': PSPrinter.cpp:789:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(i = fr + 1; i <= lr && i < data->histogram->size(); i++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~ PSPrinter.cpp:781:14: warning: unused variable 'psY' [-Wunused-variable] int psX, psY, curveBottom; ^~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Help.o clustalW/Help.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from SaveSeqFile.h:9, from SaveSeqFile.cpp:23: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from SaveSeqFile.cpp:26: clustalW/alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from SaveSeqFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from SaveSeqFile.cpp:26: clustalW/alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from SaveSeqFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from SaveSeqFile.cpp:26: clustalW/alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from SaveSeqFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from SaveSeqFile.cpp:26: clustalW/alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from SaveSeqFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from SaveSeqFile.cpp:26: clustalW/alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from SaveSeqFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from SaveSeqFile.cpp:26: clustalW/alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from SaveSeqFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from SaveSeqFile.cpp:26: clustalW/alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from SaveSeqFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from SaveSeqFile.cpp:26: clustalW/alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from SaveSeqFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from SaveSeqFile.cpp:26: clustalW/alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from SaveSeqFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/fileInput/../alignment/Alignment.h:42, from clustalW/fileInput/FileReader.h:12, from clustalW/Clustal.h:18, from clustalW/Clustal.cpp:27: clustalW/fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/Clustal.h:18, from clustalW/Clustal.cpp:27: clustalW/fileInput/FileReader.h:42:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] void checkInfile(int* nseqs, auto_ptr& fileParser); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from clustalW/Clustal.cpp:27: clustalW/alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from clustalW/Clustal.cpp:27: clustalW/alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from clustalW/Clustal.cpp:27: clustalW/alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from clustalW/Clustal.cpp:27: clustalW/alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from clustalW/Clustal.cpp:27: clustalW/alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from clustalW/Clustal.cpp:27: clustalW/alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from clustalW/Clustal.cpp:27: clustalW/alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from clustalW/Clustal.cpp:27: clustalW/alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from clustalW/Clustal.cpp:27: clustalW/alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.cpp:33: clustalW/tree/TreeInterface.h:38:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromDistMat(vector* seqWeights, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.cpp:33: clustalW/tree/TreeInterface.h:57:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromTree(Alignment* alignPtr, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.cpp:33: clustalW/tree/TreeInterface.h:102:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromDistMatNJ(vector* seqWeights, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.cpp:33: clustalW/tree/TreeInterface.h:108:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsUseOldGuideTreeNJ(DistMatrix* distMat, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.cpp:33: clustalW/tree/TreeInterface.h:133:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromTreeNJ(Alignment* alignPtr, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.cpp:33: clustalW/tree/TreeInterface.h:138:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromDistMatUPGMA(vector* seqWeights, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.cpp:33: clustalW/tree/TreeInterface.h:142:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr generateTreeFromDistMatUPGMA(RootedGuideTree* guideTree, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/Clustal.cpp: In member function 'void clustalw::Clustal::align(std::__cxx11::string*, bool)': clustalW/Clustal.cpp:162:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/Clustal.cpp: In member function 'void clustalw::Clustal::doAlignUseOldTree(std::__cxx11::string*)': clustalW/Clustal.cpp:837:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/general/SquareMat.h:9, from clustalW/general/clustalw.h:43, from clustalW/Clustal.h:15, from clustalW/Clustal.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from SeqNameWidget.h:41, from SeqNameWidget.cpp:59: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ SeqNameWidget.cpp: In member function 'virtual void SeqNameWidget::paintEvent(QPaintEvent*)': SeqNameWidget.cpp:375:11: warning: variable 'redrawRect' set but not used [-Wunused-but-set-variable] QRect redrawRect = event->rect(); ^~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Alignment.o clustalW/alignment/Alignment.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o AlignmentOutput.o clustalW/alignment/AlignmentOutput.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from clustalW/alignment/Alignment.cpp:25: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ObjectiveScore.o clustalW/alignment/ObjectiveScore.cpp clustalW/alignment/Alignment.cpp: In member function 'bool clustalw::Alignment::keepPortionOfSeqArray(int, int)': clustalW/alignment/Alignment.cpp:1715:24: warning: variable 'posToAddTo' set but not used [-Wunused-but-set-variable] SeqArray::iterator posToAddTo = sectionToRealign.begin(); ^~~~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from TreeOutputFileNames.h:10, from TreeOutputFileNames.cpp:17: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from TreeOutputFileNames.cpp:17: TreeOutputFileNames.h:73:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr treeFileNames; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from TreeOutputFileNames.cpp:14: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Sequence.o clustalW/alignment/Sequence.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from clustalW/alignment/AlignmentOutput.h:24, from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ClustalFileParser.o clustalW/fileInput/ClustalFileParser.cpp In file included from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/AlignmentOutput.cpp:27: clustalW/alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/alignment/AlignmentOutput.cpp:512:40: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool AlignmentOutput::openExplicitFile(auto_ptr& outFile, string fileName) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/alignment/AlignmentOutput.cpp:535:40: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string AlignmentOutput::openOutputFile(auto_ptr& outFile, string prompt, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/alignment/AlignmentOutput.h:20, from clustalW/alignment/AlignmentOutput.cpp:27: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/alignment/AlignmentOutput.cpp: In member function 'void clustalw::AlignmentOutput::fastaOut(clustalw::Alignment*, clustalw::outputRegion)': clustalW/alignment/AlignmentOutput.cpp:673:28: warning: catching polymorphic type 'class clustalw::VectorOutOfRange' by value [-Wcatch-value=] catch(VectorOutOfRange e) ^ clustalW/alignment/AlignmentOutput.cpp: In member function 'void clustalw::AlignmentOutput::gcgOut(clustalw::Alignment*, clustalw::outputRegion)': clustalW/alignment/AlignmentOutput.cpp:868:28: warning: catching polymorphic type 'class clustalw::VectorOutOfRange' by value [-Wcatch-value=] catch(VectorOutOfRange e) ^ clustalW/alignment/AlignmentOutput.cpp: In member function 'void clustalw::AlignmentOutput::phylipOut(clustalw::Alignment*, clustalw::outputRegion)': clustalW/alignment/AlignmentOutput.cpp:1027:28: warning: catching polymorphic type 'class clustalw::VectorOutOfRange' by value [-Wcatch-value=] catch(VectorOutOfRange e) ^ clustalW/alignment/AlignmentOutput.cpp: In member function 'void clustalw::AlignmentOutput::nexusOut(clustalw::Alignment*, clustalw::outputRegion)': clustalW/alignment/AlignmentOutput.cpp:1156:28: warning: catching polymorphic type 'class clustalw::VectorOutOfRange' by value [-Wcatch-value=] catch(VectorOutOfRange e) ^ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from WritePostscriptFile.h:10, from WritePostscriptFile.cpp:24: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/AlignmentOutput.cpp: In member function 'void clustalw::AlignmentOutput::gdeOut(clustalw::Alignment*, clustalw::outputRegion)': clustalW/alignment/AlignmentOutput.cpp:1445:28: warning: catching polymorphic type 'class clustalw::VectorOutOfRange' by value [-Wcatch-value=] catch(VectorOutOfRange e) ^ clustalW/alignment/AlignmentOutput.cpp: In member function 'void clustalw::AlignmentOutput::nbrfOut(clustalw::Alignment*, clustalw::outputRegion)': clustalW/alignment/AlignmentOutput.cpp:1560:28: warning: catching polymorphic type 'class clustalw::VectorOutOfRange' by value [-Wcatch-value=] catch(VectorOutOfRange e) ^ In file included from WritePostscriptFile.cpp:24: WritePostscriptFile.h:88:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr params; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/alignment/AlignmentOutput.cpp: In member function 'void clustalw::AlignmentOutput::clustalOut(clustalw::Alignment*, clustalw::outputRegion)': clustalW/alignment/AlignmentOutput.cpp:2095:28: warning: catching polymorphic type 'class clustalw::VectorOutOfRange' by value [-Wcatch-value=] catch(VectorOutOfRange e) ^ clustalW/alignment/AlignmentOutput.cpp:2102:21: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=] catch(exception e) ^ clustalW/alignment/AlignmentOutput.cpp: In member function 'void clustalw::AlignmentOutput::findRangeValues(clustalw::Alignment*, clustalw::rangeNum*, int, int, int)': clustalW/alignment/AlignmentOutput.cpp:2351:28: warning: catching polymorphic type 'class clustalw::VectorOutOfRange' by value [-Wcatch-value=] catch(VectorOutOfRange e) ^ In file included from WritePostscriptFile.cpp:27: clustalW/alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from WritePostscriptFile.cpp:27: clustalW/alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from WritePostscriptFile.cpp:27: clustalW/alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from WritePostscriptFile.cpp:27: clustalW/alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from WritePostscriptFile.cpp:27: clustalW/alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from WritePostscriptFile.cpp:27: clustalW/alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from WritePostscriptFile.cpp:27: clustalW/alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from WritePostscriptFile.cpp:27: clustalW/alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from WritePostscriptFile.cpp:27: clustalW/alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from /usr/include/c++/8/thread:39, from /usr/include/c++/8/future:39, from /usr/include/i386-linux-gnu/qt5/QtCore/qthread.h:50, from /usr/include/i386-linux-gnu/qt5/QtCore/QtCore:223, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgetsDepends:3, from /usr/include/i386-linux-gnu/qt5/QtWidgets/QtWidgets:3, from WritePostscriptFile.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/ObjectiveScore.h:15, from clustalW/alignment/ObjectiveScore.cpp:10: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o EMBLFileParser.o clustalW/fileInput/EMBLFileParser.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o FileParser.o clustalW/fileInput/FileParser.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o FileReader.o clustalW/fileInput/FileReader.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o GDEFileParser.o clustalW/fileInput/GDEFileParser.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o InFileStream.o clustalW/fileInput/InFileStream.cpp In file included from clustalW/fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/fileInput/../alignment/Alignment.h:42, from clustalW/fileInput/FileReader.h:12, from clustalW/fileInput/FileReader.cpp:29: clustalW/fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/fileInput/FileReader.cpp:29: clustalW/fileInput/FileReader.h:42:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] void checkInfile(int* nseqs, auto_ptr& fileParser); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/fileInput/FileReader.h:11, from clustalW/fileInput/FileReader.cpp:29: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/fileInput/FileReader.cpp: In member function 'int clustalw::FileReader::readSeqs(clustalw::Alignment*, int, std::__cxx11::string*)': clustalW/fileInput/FileReader.cpp:155:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fileParser; // Means we dont need to delete it! ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/fileInput/FileReader.h:11, from clustalW/fileInput/FileReader.cpp:29: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/fileInput/FileReader.cpp: At global scope: clustalW/fileInput/FileReader.cpp:426:42: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] void FileReader::checkInfile(int *nseqs, auto_ptr& fileParser) ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/fileInput/FileReader.h:11, from clustalW/fileInput/FileReader.cpp:29: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/fileInput/FileReader.cpp: In member function 'void clustalw::FileReader::checkInfile(int*, std::auto_ptr&)': clustalW/fileInput/FileReader.cpp:555:21: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=] catch(exception ex) ^~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o MSFFileParser.o clustalW/fileInput/MSFFileParser.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o PearsonFileParser.o clustalW/fileInput/PearsonFileParser.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o PIRFileParser.o clustalW/fileInput/PIRFileParser.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o RSFFileParser.o clustalW/fileInput/RSFFileParser.cpp clustalW/fileInput/MSFFileParser.cpp: In member function 'virtual std::vector clustalw::MSFFileParser::getSeqRange(int, int, std::__cxx11::string*)': clustalW/fileInput/MSFFileParser.cpp:34:79: warning: unused parameter 'offendingSeq' [-Wunused-parameter] vector MSFFileParser::getSeqRange(int firstSeq, int no, string *offendingSeq) ~~~~~~~~^~~~~~~~~~~~ clustalW/fileInput/MSFFileParser.cpp: In member function 'virtual void clustalw::MSFFileParser::getSecStructure(std::vector&, std::vector&, std::__cxx11::string&, int&, int)': clustalW/fileInput/MSFFileParser.cpp:246:51: warning: unused parameter 'gapPenaltyMask' [-Wunused-parameter] void MSFFileParser::getSecStructure(vector& gapPenaltyMask, vector& secStructMask, ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ clustalW/fileInput/MSFFileParser.cpp:246:81: warning: unused parameter 'secStructMask' [-Wunused-parameter] void MSFFileParser::getSecStructure(vector& gapPenaltyMask, vector& secStructMask, ~~~~~~~~~~~~~~^~~~~~~~~~~~~ clustalW/fileInput/MSFFileParser.cpp:247:45: warning: unused parameter 'secStructName' [-Wunused-parameter] string& secStructName, int &structPenalties, int length) ~~~~~~~~^~~~~~~~~~~~~ clustalW/fileInput/MSFFileParser.cpp:247:86: warning: unused parameter 'length' [-Wunused-parameter] string& secStructName, int &structPenalties, int length) ~~~~^~~~~~ clustalW/fileInput/PearsonFileParser.cpp: In member function 'virtual clustalw::Sequence clustalw::PearsonFileParser::getSeq(int, std::__cxx11::string*)': clustalW/fileInput/PearsonFileParser.cpp:199:60: warning: unused parameter 'offendingSeq' [-Wunused-parameter] Sequence PearsonFileParser::getSeq(int seqNum, string *offendingSeq) ~~~~~~~~^~~~~~~~~~~~ clustalW/fileInput/PearsonFileParser.cpp: In member function 'virtual void clustalw::PearsonFileParser::getSecStructure(std::vector&, std::vector&, std::__cxx11::string&, int&, int)': clustalW/fileInput/PearsonFileParser.cpp:444:55: warning: unused parameter 'gapPenaltyMask' [-Wunused-parameter] void PearsonFileParser::getSecStructure(vector& gapPenaltyMask, ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ clustalW/fileInput/PearsonFileParser.cpp:445:40: warning: unused parameter 'secStructMask' [-Wunused-parameter] vector& secStructMask, string& secStructName, ~~~~~~~~~~~~~~^~~~~~~~~~~~~ clustalW/fileInput/PearsonFileParser.cpp:445:63: warning: unused parameter 'secStructName' [-Wunused-parameter] vector& secStructMask, string& secStructName, ~~~~~~~~^~~~~~~~~~~~~ clustalW/fileInput/PearsonFileParser.cpp:446:53: warning: unused parameter 'length' [-Wunused-parameter] int &structPenalties, int length) ~~~~^~~~~~ clustalW/fileInput/RSFFileParser.cpp: In member function 'virtual void clustalw::RSFFileParser::getSecStructure(std::vector&, std::vector&, std::__cxx11::string&, int&, int)': clustalW/fileInput/RSFFileParser.cpp:240:51: warning: unused parameter 'gapPenaltyMask' [-Wunused-parameter] void RSFFileParser::getSecStructure(vector& gapPenaltyMask, vector& secStructMask, ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ clustalW/fileInput/PIRFileParser.cpp: In member function 'virtual void clustalw::PIRFileParser::getSecStructure(std::vector&, std::vector&, std::__cxx11::string&, int&, int)': clustalW/fileInput/PIRFileParser.cpp:292:51: warning: unused parameter 'gapPenaltyMask' [-Wunused-parameter] void PIRFileParser::getSecStructure(vector& gapPenaltyMask, vector& secStructMask, ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ clustalW/fileInput/PIRFileParser.cpp:292:81: warning: unused parameter 'secStructMask' [-Wunused-parameter] void PIRFileParser::getSecStructure(vector& gapPenaltyMask, vector& secStructMask, ~~~~~~~~~~~~~~^~~~~~~~~~~~~ clustalW/fileInput/PIRFileParser.cpp:293:45: warning: unused parameter 'secStructName' [-Wunused-parameter] string& secStructName, int &structPenalties, int length) ~~~~~~~~^~~~~~~~~~~~~ clustalW/fileInput/PIRFileParser.cpp:293:86: warning: unused parameter 'length' [-Wunused-parameter] string& secStructName, int &structPenalties, int length) ~~~~^~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ClustalWResources.o clustalW/general/ClustalWResources.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o DebugLog.o clustalW/general/DebugLog.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o OutputFile.o clustalW/general/OutputFile.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Stats.o clustalW/general/Stats.cpp In file included from clustalW/general/OutputFile.cpp:9: clustalW/general/OutputFile.h:26:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr file; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/general/OutputFile.h:8, from clustalW/general/OutputFile.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o SymMatrix.o clustalW/general/SymMatrix.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o UserParameters.o clustalW/general/UserParameters.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Utility.o clustalW/general/Utility.cpp clustalW/general/ClustalWResources.cpp: In member function 'std::__cxx11::string clustalw::ClustalWResources::findFile(std::__cxx11::string, clustalw::ClustalWResourcePathType) const': clustalW/general/ClustalWResources.cpp:106:12: warning: array subscript 1 is above array bounds of 'char [1]' [-Warray-bounds] delim[1] = 0; ~~~~~~~^ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o VectorOutOfRange.o clustalW/general/VectorOutOfRange.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o CommandLineParser.o clustalW/interface/CommandLineParser.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o InteractiveMenu.o clustalW/interface/InteractiveMenu.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Iteration.o clustalW/multipleAlign/Iteration.cpp In file included from clustalW/general/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/general/../alignment/Alignment.h:42, from clustalW/general/Stats.cpp:15: clustalW/general/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/general/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o LowScoreSegProfile.o clustalW/multipleAlign/LowScoreSegProfile.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o MSA.o clustalW/multipleAlign/MSA.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o MyersMillerProfileAlign.o clustalW/multipleAlign/MyersMillerProfileAlign.cpp clustalW/general/UserParameters.cpp: In constructor 'clustalw::UserParameters::UserParameters(bool)': clustalW/general/UserParameters.cpp:33:37: warning: unused parameter 'log' [-Wunused-parameter] UserParameters::UserParameters(bool log) ~~~~~^~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ProfileBase.o clustalW/multipleAlign/ProfileBase.cpp clustalW/general/Utility.cpp: In member function 'bool clustalw::Utility::lineType(char*, const char*)': clustalW/general/Utility.cpp:251:8: warning: variable 'n' set but not used [-Wunused-but-set-variable] int n; ^ clustalW/general/Utility.cpp: In member function 'virtual void clustalw::Utility::setInfoLabelPtr(QLabel*)': clustalW/general/Utility.cpp:519:39: warning: unused parameter 'ptrToLabelObj' [-Wunused-parameter] void Utility::setInfoLabelPtr(QLabel* ptrToLabelObj) ~~~~~~~~^~~~~~~~~~~~~ clustalW/general/Utility.cpp: In member function 'double clustalw::Utility::getReal(const char*, double, double, double)': clustalW/general/Utility.cpp:183:14: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, MAXLINE, stdin); ~~~~~^~~~~~~~~~~~~~~~~~~~~~ clustalW/general/Utility.cpp: In member function 'int clustalw::Utility::getInt(const char*, int, int, int)': clustalW/general/Utility.cpp:221:14: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, MAXLINE, stdin); ~~~~~^~~~~~~~~~~~~~~~~~~~~~ In file included from clustalW/interface/../fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/interface/../fileInput/../alignment/Alignment.h:42, from clustalW/interface/../fileInput/FileReader.h:12, from clustalW/interface/../Clustal.h:18, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/interface/../Clustal.h:18, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../fileInput/FileReader.h:42:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] void checkInfile(int* nseqs, auto_ptr& fileParser); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: clustalW/interface/../alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/../general/SquareMat.h:9, from clustalW/interface/../general/clustalw.h:43, from clustalW/interface/../Clustal.h:15, from clustalW/interface/CommandLineParser.h:18, from clustalW/interface/CommandLineParser.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ProfileStandard.o clustalW/multipleAlign/ProfileStandard.cpp In file included from clustalW/multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/multipleAlign/../alignment/Alignment.h:42, from clustalW/multipleAlign/Iteration.h:8, from clustalW/multipleAlign/Iteration.cpp:13: clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/interface/../fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/interface/../fileInput/../alignment/Alignment.h:42, from clustalW/interface/../fileInput/FileReader.h:12, from clustalW/interface/../Clustal.h:18, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/interface/../Clustal.h:18, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../fileInput/FileReader.h:42:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] void checkInfile(int* nseqs, auto_ptr& fileParser); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/multipleAlign/Iteration.cpp:17: clustalW/multipleAlign/../tree/TreeInterface.h:38:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromDistMat(vector* seqWeights, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/multipleAlign/../alignment/Alignment.h:38, from clustalW/multipleAlign/Iteration.h:8, from clustalW/multipleAlign/Iteration.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/multipleAlign/Iteration.cpp:17: clustalW/multipleAlign/../tree/TreeInterface.h:57:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromTree(Alignment* alignPtr, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/multipleAlign/../alignment/Alignment.h:38, from clustalW/multipleAlign/Iteration.h:8, from clustalW/multipleAlign/Iteration.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/multipleAlign/Iteration.cpp:17: clustalW/multipleAlign/../tree/TreeInterface.h:102:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromDistMatNJ(vector* seqWeights, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/multipleAlign/../alignment/Alignment.h:38, from clustalW/multipleAlign/Iteration.h:8, from clustalW/multipleAlign/Iteration.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/multipleAlign/Iteration.cpp:17: clustalW/multipleAlign/../tree/TreeInterface.h:108:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsUseOldGuideTreeNJ(DistMatrix* distMat, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/multipleAlign/../alignment/Alignment.h:38, from clustalW/multipleAlign/Iteration.h:8, from clustalW/multipleAlign/Iteration.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/multipleAlign/Iteration.cpp:17: clustalW/multipleAlign/../tree/TreeInterface.h:133:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromTreeNJ(Alignment* alignPtr, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/multipleAlign/../alignment/Alignment.h:38, from clustalW/multipleAlign/Iteration.h:8, from clustalW/multipleAlign/Iteration.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/interface/../Clustal.h:20, from clustalW/interface/InteractiveMenu.h:15, from clustalW/interface/InteractiveMenu.cpp:23: clustalW/interface/../alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/interface/InteractiveMenu.cpp:21: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/multipleAlign/Iteration.cpp:17: clustalW/multipleAlign/../tree/TreeInterface.h:138:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromDistMatUPGMA(vector* seqWeights, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/multipleAlign/../alignment/Alignment.h:38, from clustalW/multipleAlign/Iteration.h:8, from clustalW/multipleAlign/Iteration.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/multipleAlign/Iteration.cpp:17: clustalW/multipleAlign/../tree/TreeInterface.h:142:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr generateTreeFromDistMatUPGMA(RootedGuideTree* guideTree, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/multipleAlign/../alignment/Alignment.h:38, from clustalW/multipleAlign/Iteration.h:8, from clustalW/multipleAlign/Iteration.cpp:13: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/multipleAlign/../alignment/Alignment.h:42, from clustalW/multipleAlign/LowScoreSegProfile.h:13, from clustalW/multipleAlign/LowScoreSegProfile.cpp:9: clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/interface/InteractiveMenu.cpp: In constructor 'clustalw::InteractiveMenu::InteractiveMenu()': clustalW/interface/InteractiveMenu.cpp:41:11: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] catch(bad_alloc) ^~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ProfileWithSub.o clustalW/multipleAlign/ProfileWithSub.cpp clustalW/multipleAlign/Iteration.cpp: In member function 'bool clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)': clustalW/multipleAlign/Iteration.cpp:170:9: warning: variable 'count' set but not used [-Wunused-but-set-variable] int count; ^~~~~ In file included from clustalW/multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/multipleAlign/../alignment/Alignment.h:42, from clustalW/multipleAlign/ProfileBase.h:14, from clustalW/multipleAlign/MSA.h:10, from clustalW/multipleAlign/MSA.cpp:16: clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/multipleAlign/MSA.cpp: In member function 'int clustalw::MSA::multiSeqAlign(clustalw::Alignment*, clustalw::DistMatrix*, std::vector*, clustalw::AlignmentSteps*, int)': clustalW/multipleAlign/MSA.cpp:340:11: warning: unused variable 'alignmentScore' [-Wunused-variable] int alignmentScore = alnPtr->alignScore(); // ?? check, FS, 2009-05-18 ^~~~~~~~~~~~~~ clustalW/multipleAlign/MSA.cpp: In member function 'int clustalw::MSA::seqsAlignToProfile(clustalw::Alignment*, clustalw::DistMatrix*, std::vector*, int, std::__cxx11::string)': clustalW/multipleAlign/MSA.cpp:359:35: warning: unused parameter 'phylipName' [-Wunused-parameter] string phylipName) ~~~~~~~^~~~~~~~~~ In file included from clustalW/multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/multipleAlign/../alignment/Alignment.h:42, from clustalW/multipleAlign/ProfileAlignAlgorithm.h:10, from clustalW/multipleAlign/MyersMillerProfileAlign.h:10, from clustalW/multipleAlign/MyersMillerProfileAlign.cpp:10: clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/multipleAlign/../alignment/Alignment.h:42, from clustalW/multipleAlign/ProfileBase.h:14, from clustalW/multipleAlign/ProfileBase.cpp:9: clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/multipleAlign/Iteration.cpp:231:24: warning: ignoring return value of 'char* tmpnam(char*)', declared with attribute warn_unused_result [-Wunused-result] tmpnam (buffer); ~~~~~~~^~~~~~~~ clustalW/interface/InteractiveMenu.cpp: In member function 'int clustalw::InteractiveMenu::secStrOutputOptions()': clustalW/interface/InteractiveMenu.cpp:520:36: warning: this statement may fall through [-Wimplicit-fallthrough=] clustalObj->getHelp('C'); ~~~~~~~~~~~~~~~~~~~^~~~~ clustalW/interface/InteractiveMenu.cpp:521:13: note: here case 'Q': ^~~~ clustalW/interface/InteractiveMenu.cpp: In member function 'void clustalw::InteractiveMenu::doSystem()': clustalW/interface/InteractiveMenu.cpp:1190:15: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system(lin1.c_str()); ~~~~~~^~~~~~~~~~~~~~ In file included from clustalW/multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/multipleAlign/../alignment/Alignment.h:42, from clustalW/multipleAlign/ProfileStandard.h:9, from clustalW/multipleAlign/ProfileStandard.cpp:9: clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o FastPairwiseAlign.o clustalW/pairwise/FastPairwiseAlign.cpp In file included from clustalW/multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/multipleAlign/../alignment/Alignment.h:42, from clustalW/multipleAlign/ProfileWithSub.h:9, from clustalW/multipleAlign/ProfileWithSub.cpp:9: clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o FullPairwiseAlign.o clustalW/pairwise/FullPairwiseAlign.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o SubMatrix.o clustalW/substitutionMatrix/SubMatrix.cpp In file included from clustalW/pairwise/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/pairwise/../alignment/Alignment.h:42, from clustalW/pairwise/PairwiseAlignBase.h:10, from clustalW/pairwise/FastPairwiseAlign.h:9, from clustalW/pairwise/FastPairwiseAlign.cpp:10: clustalW/pairwise/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/pairwise/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/pairwise/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/pairwise/../alignment/Alignment.h:42, from clustalW/pairwise/PairwiseAlignBase.h:10, from clustalW/pairwise/FullPairwiseAlign.h:9, from clustalW/pairwise/FullPairwiseAlign.cpp:9: clustalW/pairwise/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/pairwise/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o AlignmentSteps.o clustalW/tree/AlignmentSteps.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ClusterTree.o clustalW/tree/ClusterTree.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o ClusterTreeOutput.o clustalW/tree/ClusterTreeOutput.cpp In file included from clustalW/substitutionMatrix/SubMatrix.cpp:15: clustalW/substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/substitutionMatrix/SubMatrix.cpp: In member function 'void clustalw::SubMatrix::tempInterface(int, int)': clustalW/substitutionMatrix/SubMatrix.cpp:1613:35: warning: unused parameter 'alignResidueType' [-Wunused-parameter] void SubMatrix::tempInterface(int alignResidueType, int alignType) ~~~~^~~~~~~~~~~~~~~~ clustalW/substitutionMatrix/SubMatrix.cpp:1613:57: warning: unused parameter 'alignType' [-Wunused-parameter] void SubMatrix::tempInterface(int alignResidueType, int alignType) ~~~~^~~~~~~~~ clustalW/substitutionMatrix/SubMatrix.cpp: In member function 'void clustalw::SubMatrix::getQTMatrixForHistogram(int (*)[32])': clustalW/substitutionMatrix/SubMatrix.cpp:1657:9: warning: variable 'maxRes' set but not used [-Wunused-but-set-variable] int maxRes; ^~~~~~ clustalW/substitutionMatrix/SubMatrix.cpp: In member function 'void clustalw::SubMatrix::getQTMatrixForLowScoreSeg(int (*)[32])': clustalW/substitutionMatrix/SubMatrix.cpp:1717:9: warning: variable 'maxRes' set but not used [-Wunused-but-set-variable] int maxRes; ^~~~~~ In file included from clustalW/tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/tree/../alignment/Alignment.h:42, from clustalW/tree/ClusterTree.h:20, from clustalW/tree/ClusterTree.cpp:9: clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/tree/ClusterTree.h:23, from clustalW/tree/ClusterTree.cpp:9: clustalW/tree/../general/OutputFile.h:26:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr file; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/ClusterTree.h:16, from clustalW/tree/ClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/ClusterTree.cpp:9: clustalW/tree/ClusterTree.h:70:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr quickDistMat; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/ClusterTree.h:16, from clustalW/tree/ClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/ClusterTree.cpp: In member function 'void clustalw::ClusterTree::calcPercIdentity(std::ofstream*, clustalw::Alignment*)': clustalW/tree/ClusterTree.cpp:580:9: warning: variable 'rs' set but not used [-Wunused-but-set-variable] int rs = 0, rl = 0; ^~ clustalW/tree/ClusterTree.cpp:580:17: warning: variable 'rl' set but not used [-Wunused-but-set-variable] int rs = 0, rl = 0; ^~ In file included from clustalW/tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/tree/../alignment/Alignment.h:42, from clustalW/tree/ClusterTreeOutput.h:11, from clustalW/tree/ClusterTreeOutput.cpp:9: clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o NJTree.o clustalW/tree/NJTree.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o RandomGenerator.o clustalW/tree/RandomGenerator.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Tree.o clustalW/tree/Tree.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o TreeInterface.o clustalW/tree/TreeInterface.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o UnRootedClusterTree.o clustalW/tree/UnRootedClusterTree.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o Node.o clustalW/tree/UPGMA/Node.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o RootedClusterTree.o clustalW/tree/UPGMA/RootedClusterTree.cpp clustalW/substitutionMatrix/SubMatrix.cpp: In member function 'int clustalw::SubMatrix::readMatrixSeries(const char*, clustalw::Matrix&, clustalw::Xref&)': clustalW/substitutionMatrix/SubMatrix.cpp:1103:19: warning: 'n' may be used uninitialized in this function [-Wmaybe-uninitialized] return (maxRes); ^ In file included from clustalW/tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/tree/../alignment/Alignment.h:42, from clustalW/tree/Tree.h:13, from clustalW/tree/Tree.cpp:10: clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/tree/Tree.cpp:10: clustalW/tree/Tree.h:26:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr createSets(int firstSeq, int lastSeq); ^~~~~~~~ In file included from clustalW/tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/tree/../alignment/Alignment.h:42, from clustalW/tree/ClusterTree.h:20, from clustalW/tree/UnRootedClusterTree.h:8, from clustalW/tree/UnRootedClusterTree.cpp:9: clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/tree/../alignment/Alignment.h:38, from clustalW/tree/Tree.h:13, from clustalW/tree/Tree.cpp:10: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/Tree.cpp:278:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr Tree::createSets(int firstSeq, int lastSeq) ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/tree/../alignment/Alignment.h:38, from clustalW/tree/Tree.h:13, from clustalW/tree/Tree.cpp:10: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/Tree.cpp: In member function 'std::auto_ptr clustalw::Tree::createSets(int, int)': clustalW/tree/Tree.cpp:280:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progAlignSteps; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/tree/../alignment/Alignment.h:38, from clustalW/tree/Tree.h:13, from clustalW/tree/Tree.cpp:10: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/ClusterTree.h:23, from clustalW/tree/UnRootedClusterTree.h:8, from clustalW/tree/UnRootedClusterTree.cpp:9: clustalW/tree/../general/OutputFile.h:26:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr file; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/ClusterTree.h:16, from clustalW/tree/UnRootedClusterTree.h:8, from clustalW/tree/UnRootedClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/UnRootedClusterTree.h:8, from clustalW/tree/UnRootedClusterTree.cpp:9: clustalW/tree/ClusterTree.h:70:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr quickDistMat; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/ClusterTree.h:16, from clustalW/tree/UnRootedClusterTree.h:8, from clustalW/tree/UnRootedClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/tree/../alignment/Alignment.h:42, from clustalW/tree/TreeInterface.h:19, from clustalW/tree/TreeInterface.cpp:15: clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/tree/TreeInterface.cpp:15: clustalW/tree/TreeInterface.h:38:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromDistMat(vector* seqWeights, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/TreeInterface.cpp:15: clustalW/tree/TreeInterface.h:57:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromTree(Alignment* alignPtr, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/TreeInterface.cpp:15: clustalW/tree/TreeInterface.h:102:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromDistMatNJ(vector* seqWeights, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/TreeInterface.cpp:15: clustalW/tree/TreeInterface.h:108:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsUseOldGuideTreeNJ(DistMatrix* distMat, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/TreeInterface.cpp:15: clustalW/tree/TreeInterface.h:133:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromTreeNJ(Alignment* alignPtr, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/TreeInterface.cpp:15: clustalW/tree/TreeInterface.h:138:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr getWeightsAndStepsFromDistMatUPGMA(vector* seqWeights, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/TreeInterface.cpp:15: clustalW/tree/TreeInterface.h:142:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr generateTreeFromDistMatUPGMA(RootedGuideTree* guideTree, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/ClusterTree.h:23, from clustalW/tree/UnRootedClusterTree.h:8, from clustalW/tree/TreeInterface.cpp:17: clustalW/tree/../general/OutputFile.h:26:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr file; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/UnRootedClusterTree.h:8, from clustalW/tree/TreeInterface.cpp:17: clustalW/tree/ClusterTree.h:70:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr quickDistMat; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/TreeInterface.cpp:18: clustalW/tree/Tree.h:26:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr createSets(int firstSeq, int lastSeq); ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/TreeInterface.cpp:23: clustalW/tree/UPGMA/RootedClusterTree.h:22:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr treeFromDistMatrix(RootedGuideTree* phyloTree, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp:31:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp:103:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp:195:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp: In member function 'std::auto_ptr clustalw::TreeInterface::getWeightsAndStepsFromDistMatNJ(std::vector*, clustalw::DistMatrix*, clustalw::Alignment*, int, int, std::__cxx11::string*, bool*)': clustalW/tree/TreeInterface.cpp:200:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp: At global scope: clustalW/tree/TreeInterface.cpp:208:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp: In member function 'std::auto_ptr clustalw::TreeInterface::getWeightsAndStepsUseOldGuideTreeNJ(clustalw::DistMatrix*, clustalw::Alignment*, std::__cxx11::string*, std::vector*, int, int, bool*)': clustalW/tree/TreeInterface.cpp:214:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp: At global scope: clustalW/tree/TreeInterface.cpp:439:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp: In member function 'std::auto_ptr clustalw::TreeInterface::getWeightsAndStepsFromTreeNJ(clustalw::Alignment*, clustalw::DistMatrix*, std::__cxx11::string*, std::vector*, int, int, bool*)': clustalW/tree/TreeInterface.cpp:445:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp: At global scope: clustalW/tree/TreeInterface.cpp:485:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp: In member function 'std::auto_ptr clustalw::TreeInterface::getWeightsAndStepsFromDistMatUPGMA(std::vector*, clustalw::DistMatrix*, clustalw::Alignment*, int, int, std::__cxx11::string*, bool*)': clustalW/tree/TreeInterface.cpp:490:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp: At global scope: clustalW/tree/TreeInterface.cpp:503:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr TreeInterface::generateTreeFromDistMatUPGMA(RootedGuideTree* guideTree, DistMatrix* distMat, Alignment *alignPtr, int seq1, int nSeqs, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/TreeInterface.cpp: In member function 'std::auto_ptr clustalw::TreeInterface::generateTreeFromDistMatUPGMA(clustalw::RootedGuideTree*, clustalw::DistMatrix*, clustalw::Alignment*, int, int, std::__cxx11::string*, bool*)': clustalW/tree/TreeInterface.cpp:506:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/TreeInterface.h:17, from clustalW/tree/TreeInterface.cpp:15: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/tree/UPGMA/../../alignment/Alignment.h:42, from clustalW/tree/UPGMA/../ClusterTree.h:20, from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/tree/UPGMA/../ClusterTree.h:23, from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: clustalW/tree/UPGMA/../../general/OutputFile.h:26:14: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] std::auto_ptr file; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/UPGMA/../ClusterTree.h:16, from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: clustalW/tree/UPGMA/../ClusterTree.h:70:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr quickDistMat; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/UPGMA/../ClusterTree.h:16, from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: clustalW/tree/UPGMA/RootedClusterTree.h:22:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr treeFromDistMatrix(RootedGuideTree* phyloTree, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/UPGMA/../ClusterTree.h:16, from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/UPGMA/RootedClusterTree.cpp:11: clustalW/tree/UPGMA/UPGMAAlgorithm.h:23:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr generateTree(RootedGuideTree* phyTree, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/UPGMA/../ClusterTree.h:16, from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/UPGMA/RootedClusterTree.cpp:11: clustalW/tree/UPGMA/UPGMAAlgorithm.h:51:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/UPGMA/../ClusterTree.h:16, from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/UPGMA/RootedClusterTree.cpp:17:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr RootedClusterTree::treeFromDistMatrix(RootedGuideTree* phyloTree,DistMatrix* distMat, Alignment *alignPtr, ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/UPGMA/../ClusterTree.h:16, from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/UPGMA/RootedClusterTree.cpp: In member function 'std::auto_ptr clustalw::RootedClusterTree::treeFromDistMatrix(clustalw::RootedGuideTree*, clustalw::DistMatrix*, clustalw::Alignment*, int, int, std::__cxx11::string&)': clustalW/tree/UPGMA/RootedClusterTree.cpp:21:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from clustalW/tree/UPGMA/../ClusterTree.h:16, from clustalW/tree/UPGMA/RootedClusterTree.h:8, from clustalW/tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o RootedGuideTree.o clustalW/tree/UPGMA/RootedGuideTree.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o RootedTreeOutput.o clustalW/tree/UPGMA/RootedTreeOutput.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o UPGMAAlgorithm.o clustalW/tree/UPGMA/UPGMAAlgorithm.cpp g++ -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -dM -E -o moc_predefs.h /usr/lib/i386-linux-gnu/qt5/mkspecs/features/data/dummy.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include AlignmentFormatOptions.h -o moc_AlignmentFormatOptions.cpp In file included from clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/tree/UPGMA/../../alignment/Alignment.h:42, from clustalW/tree/UPGMA/RootedGuideTree.h:17, from clustalW/tree/UPGMA/RootedGuideTree.cpp:10: clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include AlignmentParameters.h -o moc_AlignmentParameters.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include AlignmentViewerWidget.h -o moc_AlignmentViewerWidget.cpp In file included from clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/tree/UPGMA/../../alignment/Alignment.h:42, from clustalW/tree/UPGMA/RootedGuideTree.h:17, from clustalW/tree/UPGMA/RootedTreeOutput.h:15, from clustalW/tree/UPGMA/RootedTreeOutput.cpp:9: clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include AlignmentWidget.h -o moc_AlignmentWidget.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include AlignOutputFileNames.h -o moc_AlignOutputFileNames.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include BootstrapTreeDialog.h -o moc_BootstrapTreeDialog.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include ColorFileXmlParser.h -o moc_ColorFileXmlParser.cpp In file included from clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/tree/UPGMA/../../alignment/Alignment.h:42, from clustalW/tree/UPGMA/RootedGuideTree.h:17, from clustalW/tree/UPGMA/UPGMAAlgorithm.h:8, from clustalW/tree/UPGMA/UPGMAAlgorithm.cpp:4: clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/tree/UPGMA/UPGMAAlgorithm.cpp:4: clustalW/tree/UPGMA/UPGMAAlgorithm.h:23:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr generateTree(RootedGuideTree* phyTree, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/tree/UPGMA/../../general/SquareMat.h:9, from clustalW/tree/UPGMA/../../general/clustalw.h:43, from clustalW/tree/UPGMA/UPGMAAlgorithm.h:6, from clustalW/tree/UPGMA/UPGMAAlgorithm.cpp:4: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/tree/UPGMA/UPGMAAlgorithm.cpp:4: clustalW/tree/UPGMA/UPGMAAlgorithm.h:51:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr progSteps; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/tree/UPGMA/../../general/SquareMat.h:9, from clustalW/tree/UPGMA/../../general/clustalw.h:43, from clustalW/tree/UPGMA/UPGMAAlgorithm.h:6, from clustalW/tree/UPGMA/UPGMAAlgorithm.cpp:4: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ clustalW/tree/UPGMA/UPGMAAlgorithm.cpp:27:1: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr UPGMAAlgorithm::generateTree(RootedGuideTree* phyTree, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/tree/UPGMA/../../general/SquareMat.h:9, from clustalW/tree/UPGMA/../../general/clustalw.h:43, from clustalW/tree/UPGMA/UPGMAAlgorithm.h:6, from clustalW/tree/UPGMA/UPGMAAlgorithm.cpp:4: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include ColumnScoreParams.h -o moc_ColumnScoreParams.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include FileDialog.h -o moc_FileDialog.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign 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-I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include LowScoringSegParams.h -o moc_LowScoringSegParams.cpp 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-I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include 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-I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include SeqNameWidget.h -o moc_SeqNameWidget.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include TreeFormatOptions.h -o moc_TreeFormatOptions.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include TreeOutputFileNames.h -o moc_TreeOutputFileNames.cpp /usr/lib/qt5/bin/moc -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/clustalx-2.1+lgpl/moc_predefs.h -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl -I/build/clustalx-2.1+lgpl/clustalW/general -I/build/clustalx-2.1+lgpl/clustalW/substitutionMatrix -I/build/clustalx-2.1+lgpl/clustalW/alignment -I/build/clustalx-2.1+lgpl/clustalW -I/build/clustalx-2.1+lgpl/clustalW/fileInput -I/build/clustalx-2.1+lgpl/clustalW/interface -I/build/clustalx-2.1+lgpl/clustalW/pairwise -I/build/clustalx-2.1+lgpl/clustalW/multipleAlign -I/build/clustalx-2.1+lgpl/clustalW/tree -I/build/clustalx-2.1+lgpl/clustalW/tree/UPGMA -I/usr/include/i386-linux-gnu/qt5 -I/usr/include/i386-linux-gnu/qt5/QtWidgets -I/usr/include/i386-linux-gnu/qt5/QtGui -I/usr/include/i386-linux-gnu/qt5/QtXml -I/usr/include/i386-linux-gnu/qt5/QtCore -I/usr/include/c++/8 -I/usr/include/i386-linux-gnu/c++/8 -I/usr/include/c++/8/backward -I/usr/lib/gcc/i686-linux-gnu/8/include -I/usr/local/include -I/usr/lib/gcc/i686-linux-gnu/8/include-fixed -I/usr/include/i386-linux-gnu -I/usr/include WritePostscriptFile.h -o moc_WritePostscriptFile.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_AlignmentFormatOptions.o moc_AlignmentFormatOptions.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_AlignmentParameters.o moc_AlignmentParameters.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_AlignmentViewerWidget.o moc_AlignmentViewerWidget.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_AlignmentWidget.o moc_AlignmentWidget.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_AlignOutputFileNames.o moc_AlignOutputFileNames.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_BootstrapTreeDialog.o moc_BootstrapTreeDialog.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_ColorFileXmlParser.o moc_ColorFileXmlParser.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_ColumnScoreParams.o moc_ColumnScoreParams.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_FileDialog.o moc_FileDialog.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_HelpDisplayWidget.o moc_HelpDisplayWidget.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from AlignmentViewerWidget.h:36, from moc_AlignmentViewerWidget.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_HistogramWidget.o moc_HistogramWidget.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from BootstrapTreeDialog.h:11, from moc_BootstrapTreeDialog.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from moc_BootstrapTreeDialog.cpp:9: BootstrapTreeDialog.h:70:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr treeFileNames; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from BootstrapTreeDialog.h:10, from moc_BootstrapTreeDialog.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_LowScoringSegParams.o moc_LowScoringSegParams.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from AlignOutputFileNames.h:10, from moc_AlignOutputFileNames.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from moc_AlignOutputFileNames.cpp:9: AlignOutputFileNames.h:106:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr outFileNames; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from AlignOutputFileNames.h:9, from moc_AlignOutputFileNames.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from AlignmentWidget.h:41, from moc_AlignmentWidget.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from HelpDisplayWidget.h:18, from moc_HelpDisplayWidget.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from HardCodedColorScheme.h:8, from ColorParameters.h:11, from ColorFileXmlParser.h:9, from moc_ColorFileXmlParser.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_mainwindow.o moc_mainwindow.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_PairwiseParams.o moc_PairwiseParams.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_ProteinGapParameters.o moc_ProteinGapParameters.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_PSPrinter.o moc_PSPrinter.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_SaveSeqFile.o moc_SaveSeqFile.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_SearchForString.o moc_SearchForString.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_SecStructOptions.o moc_SecStructOptions.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_SeqNameWidget.o moc_SeqNameWidget.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_TreeFormatOptions.o moc_TreeFormatOptions.cpp g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_TreeOutputFileNames.o moc_TreeOutputFileNames.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from SaveSeqFile.h:9, from moc_SaveSeqFile.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ g++ -c -pipe -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -W -D_REENTRANT -fPIC -DOS_UNIX -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_XML_LIB -DQT_CORE_LIB -g -O2 -ffile-prefix-map=/build/clustalx-2.1+lgpl=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I. -IclustalW/general -IclustalW/substitutionMatrix -IclustalW/alignment -IclustalW -IclustalW/fileInput -IclustalW/interface -IclustalW/pairwise -IclustalW/multipleAlign -IclustalW/tree -IclustalW/tree/UPGMA -isystem /usr/include/i386-linux-gnu/qt5 -isystem /usr/include/i386-linux-gnu/qt5/QtWidgets -isystem /usr/include/i386-linux-gnu/qt5/QtGui -isystem /usr/include/i386-linux-gnu/qt5/QtXml -isystem /usr/include/i386-linux-gnu/qt5/QtCore -I. -isystem /usr/include/libdrm -I/usr/lib/i386-linux-gnu/qt5/mkspecs/linux-g++ -o moc_WritePostscriptFile.o moc_WritePostscriptFile.cpp In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from HardCodedColorScheme.h:8, from ColorParameters.h:11, from PSPrinter.h:11, from moc_PSPrinter.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/Clustal.h:18, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/fileInput/FileReader.h:42:38: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] void checkInfile(int* nseqs, auto_ptr& fileParser); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/alignment/AlignmentOutput.h:68:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] bool openExplicitFile(auto_ptr& outFile, string fileName); ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/alignment/AlignmentOutput.h:69:31: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] string openOutputFile(auto_ptr& outFile, string prompt, string path, ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/alignment/AlignmentOutput.h:75:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr clustalOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/alignment/AlignmentOutput.h:76:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gcgOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/alignment/AlignmentOutput.h:77:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nbrfOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/alignment/AlignmentOutput.h:78:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr phylipOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/alignment/AlignmentOutput.h:79:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr gdeOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/alignment/AlignmentOutput.h:80:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr nexusOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/Clustal.h:20, from mainwindow.h:45, from moc_mainwindow.cpp:9: clustalW/alignment/AlignmentOutput.h:81:9: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr fastaOutFile; ^~~~~~~~ In file included from /usr/include/c++/8/bits/locale_conv.h:41, from /usr/include/c++/8/locale:43, from /usr/include/c++/8/iomanip:43, from clustalW/alignment/Alignment.h:38, from AlignmentViewerWidget.h:36, from mainwindow.h:37, from moc_mainwindow.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from TreeOutputFileNames.h:10, from moc_TreeOutputFileNames.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from moc_TreeOutputFileNames.cpp:9: TreeOutputFileNames.h:73:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr treeFileNames; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from TreeOutputFileNames.h:9, from moc_TreeOutputFileNames.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from SeqNameWidget.h:41, from moc_SeqNameWidget.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from clustalW/alignment/../substitutionMatrix/globalmatrix.h:8, from clustalW/alignment/Alignment.h:42, from ClustalQtParams.h:13, from WritePostscriptFile.h:10, from moc_WritePostscriptFile.cpp:9: clustalW/alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ clustalW/alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^~~~~~~~~~~~~~ In file included from moc_WritePostscriptFile.cpp:9: WritePostscriptFile.h:88:5: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] auto_ptr params; ^~~~~~~~ In file included from /usr/include/c++/8/memory:80, from WritePostscriptFile.h:9, from moc_WritePostscriptFile.cpp:9: /usr/include/c++/8/bits/unique_ptr.h:53:28: note: declared here template class auto_ptr; ^~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -Wl,-z,relro -Wl,-z,now -o clustalx AlignmentFormatOptions.o AlignmentParameters.o AlignmentViewerWidget.o AlignmentWidget.o AlignOutputFileNames.o BootstrapTreeDialog.o ColorFileXmlParser.o ColorParameters.o ColumnScoreParams.o FileDialog.o HardCodedColorScheme.o HelpDisplayWidget.o HistogramWidget.o KeyController.o LowScoringSegParams.o main.o mainwindow.o PairwiseParams.o PostscriptFileParams.o ProteinGapParameters.o PSPrinter.o QTUtility.o Resources.o SaveSeqFile.o SearchForString.o SecStructOptions.o SeqNameWidget.o TreeFormatOptions.o TreeOutputFileNames.o WritePostscriptFile.o Clustal.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o ClustalFileParser.o EMBLFileParser.o FileParser.o FileReader.o GDEFileParser.o InFileStream.o MSFFileParser.o PearsonFileParser.o PIRFileParser.o RSFFileParser.o ClustalWResources.o DebugLog.o OutputFile.o Stats.o SymMatrix.o UserParameters.o Utility.o VectorOutOfRange.o CommandLineParser.o InteractiveMenu.o Iteration.o LowScoreSegProfile.o MSA.o MyersMillerProfileAlign.o ProfileBase.o ProfileStandard.o ProfileWithSub.o FastPairwiseAlign.o FullPairwiseAlign.o SubMatrix.o AlignmentSteps.o ClusterTree.o ClusterTreeOutput.o NJTree.o RandomGenerator.o Tree.o TreeInterface.o UnRootedClusterTree.o Node.o RootedClusterTree.o RootedGuideTree.o RootedTreeOutput.o UPGMAAlgorithm.o moc_AlignmentFormatOptions.o moc_AlignmentParameters.o moc_AlignmentViewerWidget.o moc_AlignmentWidget.o moc_AlignOutputFileNames.o moc_BootstrapTreeDialog.o moc_ColorFileXmlParser.o moc_ColumnScoreParams.o moc_FileDialog.o moc_HelpDisplayWidget.o moc_HistogramWidget.o moc_LowScoringSegParams.o moc_mainwindow.o moc_PairwiseParams.o moc_ProteinGapParameters.o moc_PSPrinter.o moc_SaveSeqFile.o moc_SearchForString.o moc_SecStructOptions.o moc_SeqNameWidget.o moc_TreeFormatOptions.o moc_TreeOutputFileNames.o moc_WritePostscriptFile.o -lQt5Widgets -lQt5Gui -lQt5Xml -lQt5Core -lGL -lpthread /usr/bin/ld: Iteration.o: in function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)': ./clustalW/multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp' make[1]: Leaving directory '/build/clustalx-2.1+lgpl' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install dh_install dh_installdocs debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/clustalx-2.1+lgpl' dh_installchangelogs debian/CHANGELOG.upstream make[1]: Leaving directory '/build/clustalx-2.1+lgpl' dh_installman dh_installmime dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/clustalx/usr/bin/clustalx was not linked against libGL.so.1 (it uses none of the library's symbols) dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'clustalx-dbgsym' in '../clustalx-dbgsym_2.1+lgpl-8_i386.deb'. dpkg-deb: building package 'clustalx' in '../clustalx_2.1+lgpl-8_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../clustalx_2.1+lgpl-8_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/19442 and its subdirectories I: Current time: Tue Jul 9 03:14:01 -12 2019 I: pbuilder-time-stamp: 1562685241 Tue Jul 9 15:14:02 UTC 2019 I: 1st build successful. Starting 2nd build on remote node profitbricks-build16-i386.debian.net. Tue Jul 9 15:14:02 UTC 2019 I: Preparing to do remote build '2' on profitbricks-build16-i386.debian.net. Tue Jul 9 15:15:50 UTC 2019 I: Deleting $TMPDIR on profitbricks-build16-i386.debian.net. Tue Jul 9 15:15:51 UTC 2019 I: clustalx_2.1+lgpl-8_i386.changes: Format: 1.8 Date: Sun, 24 Feb 2019 20:04:40 +0100 Source: clustalx Binary: clustalx clustalx-dbgsym Architecture: i386 Version: 2.1+lgpl-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: clustalx - Multiple alignment of nucleic acid and protein sequences (graphic Closes: 923120 Changes: clustalx (2.1+lgpl-8) unstable; urgency=medium . [ Jelmer Vernooij ] * Trim trailing whitespace. . [ Helmut Grohne ] * Fix FTCBFS: Let dh_auto_configure pass cross flags to qmake. Closes: #923120 . [ Andreas Tille ] * Standards-Version: 4.3.0 Checksums-Sha1: 8c8d915110300147293247df627171b23c9d70da 12769048 clustalx-dbgsym_2.1+lgpl-8_i386.deb 23b02460cc2b919962c5011743cb7b446a036ef1 9759 clustalx_2.1+lgpl-8_i386.buildinfo 612b1e27a0d6d86629f73b190edeca4775f3be9a 476564 clustalx_2.1+lgpl-8_i386.deb Checksums-Sha256: ae742a17eff68c0f4cbb6b5b101f9036d882b22ad5fcea7ad0585588c2428c43 12769048 clustalx-dbgsym_2.1+lgpl-8_i386.deb bffce3a97797ce91d15420631a9a82a43eb7dfba9996bc245f65b32f92888d0b 9759 clustalx_2.1+lgpl-8_i386.buildinfo 237f81404b780c1c47c42cf4860649f1f7612f02431eb99675d7b1aecb536102 476564 clustalx_2.1+lgpl-8_i386.deb Files: 023888afb1bc78f60d14d0585c6e7d0e 12769048 debug optional clustalx-dbgsym_2.1+lgpl-8_i386.deb ac979f6644ebf0463f2957c73085441e 9759 science optional clustalx_2.1+lgpl-8_i386.buildinfo 188e102ebc7024da3a11e8abcb5b6763 476564 science optional clustalx_2.1+lgpl-8_i386.deb Tue Jul 9 15:15:52 UTC 2019 I: diffoscope 116 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.EegRTN8z3q/clustalx_2.1+lgpl-8.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.EegRTN8z3q/clustalx_2.1+lgpl-8.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.EegRTN8z3q/clustalx_2.1+lgpl-8.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.EegRTN8z3q/b1/clustalx_2.1+lgpl-8_i386.changes /srv/reproducible-results/rbuild-debian/tmp.EegRTN8z3q/b2/clustalx_2.1+lgpl-8_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.493s) 0.493s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.131s) 0.131s 10 calls diffoscope.comparators.binary.FilesystemFile Tue Jul 9 15:15:54 UTC 2019 I: diffoscope 116 found no differences in the changes files, and a .buildinfo file also exists. Tue Jul 9 15:15:54 UTC 2019 I: clustalx from buster built successfully and reproducibly on i386. Tue Jul 9 15:15:56 UTC 2019 I: Submitting .buildinfo files to external archives: Tue Jul 9 15:15:56 UTC 2019 I: Submitting 12K b1/clustalx_2.1+lgpl-8_i386.buildinfo.asc Tue Jul 9 15:15:57 UTC 2019 I: Submitting 12K b2/clustalx_2.1+lgpl-8_i386.buildinfo.asc Tue Jul 9 15:16:23 UTC 2019 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Jul 9 15:16:23 UTC 2019 I: Done submitting .buildinfo files. Tue Jul 9 15:16:23 UTC 2019 I: Removing signed clustalx_2.1+lgpl-8_i386.buildinfo.asc files: removed './b1/clustalx_2.1+lgpl-8_i386.buildinfo.asc' removed './b2/clustalx_2.1+lgpl-8_i386.buildinfo.asc'