Thu Jun 27 10:19:53 UTC 2019 I: starting to build gatb-core/buster/i386 on jenkins on '2019-06-27 10:19' Thu Jun 27 10:19:53 UTC 2019 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_14/711/console.log Thu Jun 27 10:19:53 UTC 2019 I: Downloading source for buster/gatb-core=1.4.1+git20181225.44d5a44+dfsg-3 --2019-06-27 10:19:53-- http://deb.debian.org/debian/pool/main/g/gatb-core/gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.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/g/gatb-core/gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.dsc [following] --2019-06-27 10:19:53-- http://cdn-fastly.deb.debian.org/debian/pool/main/g/gatb-core/gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.dsc Reusing existing connection to 78.137.99.97:3128. Proxy request sent, awaiting response... 200 OK Length: 2452 (2.4K) Saving to: ‘gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.dsc’ 0K .. 100% 160M=0s 2019-06-27 10:19:53 (160 MB/s) - ‘gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.dsc’ saved [2452/2452] Thu Jun 27 10:19:53 UTC 2019 I: gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: gatb-core Binary: gatb-core, libgatbcore2, libgatbcore-dev, gatb-core-testdata Architecture: any all Version: 1.4.1+git20181225.44d5a44+dfsg-3 Maintainer: Debian Med Packaging Team Uploaders: Nadiya Sitdykova , Andreas Tille Homepage: https://github.com/GATB/gatb-core Standards-Version: 4.3.0 Vcs-Browser: https://salsa.debian.org/med-team/gatb-core Vcs-Git: https://salsa.debian.org/med-team/gatb-core.git Build-Depends: debhelper (>= 12~), d-shlibs, cmake, libcppunit-dev, libhdf5-dev, libboost-dev, libjsoncpp-dev, doxygen, graphviz Package-List: gatb-core deb science optional arch=any gatb-core-testdata deb science optional arch=all libgatbcore-dev deb libdevel optional arch=any libgatbcore2 deb libs optional arch=any Checksums-Sha1: f6ec13d6cad10e79e62f7e5cb79051121d8983af 2942532 gatb-core_1.4.1+git20181225.44d5a44+dfsg.orig.tar.xz 1fb578281792fae54f82b14f2de9d1014e06ba39 92808 gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.debian.tar.xz Checksums-Sha256: ed5e4663654887f401fd040d5e4590432e50af13583c2acbd95ab1fa63ce8575 2942532 gatb-core_1.4.1+git20181225.44d5a44+dfsg.orig.tar.xz ac15f3e8e3dde21e67863aa70f73f28655b6ea7f246adf7500c52a9c5d5b2a51 92808 gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.debian.tar.xz Files: 4a392da3d22f9dcc12163c7013b95edb 2942532 gatb-core_1.4.1+git20181225.44d5a44+dfsg.orig.tar.xz 8623b91dda142310af6899886a0bec20 92808 gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl0KFVoRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtF93w/+Ps/oM3GNHlnVBOMvgAsSogIdpyjBdfFf acwbGp0s9RFfgm2stcDGhEo5Sp+qazqlgubH8oS28Ibe2aM4JX+UKaa7d2ObH+zs 76YTRXL8dk/KZ6ypeTqR0gJJppfN9tvTbg7KN69kAHO+HTWXG0S0SHLTQM2j6aVU smu1qYsidaiMXskE5pf7lxz0OZDs4YFrDyZ0CqTvyftRGH82JgR45Q6crj/J1e7B 4sQiiAqh0u7Epf5Pc3axvVipqVsNO2BdHr8u879n9pxPM1nlVG6qiBJyX+b6pbu5 mafC0q2VS2BwQXTrdv3Opt+2fsMpuXXqXYhkCXi2VRWxbdQGV3L8O8g8ny55+DDl rHZWQ2Ot0CmFJKwhC6tJZJ78jmm0Xn4iCxOmKnuXtigVwnglqVDnRm9DKYQlwKrE xk+RESoHcj5NEpI5rs+sjN8iUEER7af+m16CHEncRwhBQFthPmK3WIb7i78R/vBo K/DlnmBhm7t5pOw0InpyG+7EMFpR5ypdrhg6tKh6YDCwqtIDnFctSyBI0tLwE3xD vRN2Z+qfQKc67GlDfFt0FRYswppCNsEuyts5RZZhpB0u87P8JbDnmbn+xGO/f6Of GL2qkf780CDY15FTEBuep7N0L6rBit4OqGk3XjsuY/wILzUmophrwNO5VWEwtgIe e/BB/aztJGs= =dkiA -----END PGP SIGNATURE----- Thu Jun 27 10:19:53 UTC 2019 I: Checking whether the package is not for us Thu Jun 27 10:19:53 UTC 2019 I: Starting 1st build on remote node profitbricks-build6-i386.debian.net. Thu Jun 27 10:19:53 UTC 2019 I: Preparing to do remote build '1' on profitbricks-build6-i386.debian.net. Thu Jun 27 10:24:59 UTC 2019 I: Deleting $TMPDIR on profitbricks-build6-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Jul 29 04:42:55 -12 2020 I: pbuilder-time-stamp: 1596040975 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 [gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.dsc] I: copying [./gatb-core_1.4.1+git20181225.44d5a44+dfsg.orig.tar.xz] I: copying [./gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.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 Tue Jun 18 22:58:34 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 ./gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.dsc dpkg-source: info: extracting gatb-core in gatb-core-1.4.1+git20181225.44d5a44+dfsg dpkg-source: info: unpacking gatb-core_1.4.1+git20181225.44d5a44+dfsg.orig.tar.xz dpkg-source: info: unpacking gatb-core_1.4.1+git20181225.44d5a44+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_hdf5.patch dpkg-source: info: applying fix_hdf5_includes.patch dpkg-source: info: applying dynamic_lib.patch dpkg-source: info: applying fix_install_location.patch dpkg-source: info: applying set_soversion.patch dpkg-source: info: applying dynamic_linking_of_tools.patch dpkg-source: info: applying multiarch.patch dpkg-source: info: applying spelling.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 (>= 12~), d-shlibs, cmake, libcppunit-dev, libhdf5-dev, libboost-dev, libjsoncpp-dev, doxygen, graphviz 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 (>= 12~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libcppunit-dev; however: Package libcppunit-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libjsoncpp-dev; however: Package libjsoncpp-dev is not installed. pbuilder-satisfydepends-dummy depends on doxygen; however: Package doxygen is not installed. pbuilder-satisfydepends-dummy depends on graphviz; however: Package graphviz 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} cmake{a} cmake-data{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} doxygen{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} graphviz{a} groff-base{a} hdf5-helpers{a} intltool-debian{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libarchive13{a} libboost-dev{a} libboost1.67-dev{a} libbsd0{a} libcairo2{a} libcdt5{a} libcgraph6{a} libclang1-6.0{a} libcppunit-1.14-0{a} libcppunit-dev{a} libcroco3{a} libcurl4{a} libdatrie1{a} libedit2{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgd3{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgts-0.7-5{a} libgvc6{a} libgvpr2{a} libharfbuzz0b{a} libhdf5-103{a} libhdf5-cpp-103{a} libhdf5-dev{a} libice6{a} libicu63{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjsoncpp-dev{a} libjsoncpp1{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblab-gamut1{a} libldap-2.4-2{a} libldap-common{a} libllvm6.0{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpathplan4{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libprocps7{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libsm6{a} libssh2-1{a} libssl1.1{a} libsz2{a} libthai-data{a} libthai0{a} libtiff5{a} libtool{a} libuchardet0{a} libuv1{a} libwebp6{a} libx11-6{a} libx11-data{a} libxau6{a} libxaw7{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxdot4{a} libxext6{a} libxml2{a} libxmu6{a} libxpm4{a} libxrender1{a} libxt6{a} lsb-base{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} ucf{a} x11-common{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl fonts-liberation krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libgts-bin libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix shared-mime-info wget xdg-user-dirs 0 packages upgraded, 128 newly installed, 0 to remove and 0 not upgraded. Need to get 83.8 MB of archives. After unpacking 406 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 libncurses6 i386 6.1+20181013-2 [109 kB] Get: 8 http://cdn-fastly.deb.debian.org/debian buster/main i386 libprocps7 i386 2:3.3.15-2 [62.7 kB] Get: 9 http://cdn-fastly.deb.debian.org/debian buster/main i386 lsb-base all 10.2019051400 [28.4 kB] Get: 10 http://cdn-fastly.deb.debian.org/debian buster/main i386 procps i386 2:3.3.15-2 [259 kB] Get: 11 http://cdn-fastly.deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 12 http://cdn-fastly.deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4 [242 kB] Get: 13 http://cdn-fastly.deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4 [124 kB] Get: 14 http://cdn-fastly.deb.debian.org/debian buster/main i386 file i386 1:5.35-4 [66.3 kB] Get: 15 http://cdn-fastly.deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 16 http://cdn-fastly.deb.debian.org/debian buster/main i386 ucf all 3.0038+nmu1 [69.0 kB] Get: 17 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 18 http://cdn-fastly.deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 19 http://cdn-fastly.deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 20 http://cdn-fastly.deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 21 http://cdn-fastly.deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 22 http://cdn-fastly.deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 23 http://cdn-fastly.deb.debian.org/debian buster/main i386 cmake-data all 3.13.4-1 [1476 kB] Get: 24 http://cdn-fastly.deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6 [8443 kB] Get: 25 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 26 http://cdn-fastly.deb.debian.org/debian buster/main i386 libarchive13 i386 3.3.3-4 [351 kB] Get: 27 http://cdn-fastly.deb.debian.org/debian buster/main i386 libkeyutils1 i386 1.6-6 [15.4 kB] Get: 28 http://cdn-fastly.deb.debian.org/debian buster/main i386 libkrb5support0 i386 1.17-3 [68.6 kB] Get: 29 http://cdn-fastly.deb.debian.org/debian buster/main i386 libk5crypto3 i386 1.17-3 [126 kB] Get: 30 http://cdn-fastly.deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1c-1 [1532 kB] Get: 31 http://cdn-fastly.deb.debian.org/debian buster/main i386 libkrb5-3 i386 1.17-3 [396 kB] Get: 32 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgssapi-krb5-2 i386 1.17-3 [168 kB] Get: 33 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsasl2-modules-db i386 2.1.27+dfsg-1 [69.9 kB] Get: 34 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsasl2-2 i386 2.1.27+dfsg-1 [109 kB] Get: 35 http://cdn-fastly.deb.debian.org/debian buster/main i386 libldap-common all 2.4.47+dfsg-3 [89.4 kB] Get: 36 http://cdn-fastly.deb.debian.org/debian buster/main i386 libldap-2.4-2 i386 2.4.47+dfsg-3 [236 kB] Get: 37 http://cdn-fastly.deb.debian.org/debian buster/main i386 libnghttp2-14 i386 1.36.0-2 [90.3 kB] Get: 38 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpsl5 i386 0.20.2-2 [54.4 kB] Get: 39 http://cdn-fastly.deb.debian.org/debian buster/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2 [64.2 kB] Get: 40 http://cdn-fastly.deb.debian.org/debian buster/main i386 libssh2-1 i386 1.8.0-2.1 [147 kB] Get: 41 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcurl4 i386 7.64.0-4 [358 kB] Get: 42 http://cdn-fastly.deb.debian.org/debian buster/main i386 libexpat1 i386 2.2.6-1 [102 kB] Get: 43 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjsoncpp1 i386 1.7.4-3 [85.0 kB] Get: 44 http://cdn-fastly.deb.debian.org/debian buster/main i386 librhash0 i386 1.3.8-1 [135 kB] Get: 45 http://cdn-fastly.deb.debian.org/debian buster/main i386 libuv1 i386 1.24.1-1 [116 kB] Get: 46 http://cdn-fastly.deb.debian.org/debian buster/main i386 cmake i386 3.13.4-1 [3747 kB] Get: 47 http://cdn-fastly.deb.debian.org/debian buster/main i386 d-shlibs all 0.84 [17.2 kB] Get: 48 http://cdn-fastly.deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 49 http://cdn-fastly.deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 50 http://cdn-fastly.deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 51 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 52 http://cdn-fastly.deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 53 http://cdn-fastly.deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 54 http://cdn-fastly.deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 55 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2 [1333 kB] Get: 56 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 57 http://cdn-fastly.deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 58 http://cdn-fastly.deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 59 http://cdn-fastly.deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 60 http://cdn-fastly.deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 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 libllvm6.0 i386 1:6.0.1-10 [16.4 MB] Get: 63 http://cdn-fastly.deb.debian.org/debian buster/main i386 libclang1-6.0 i386 1:6.0.1-10 [7959 kB] Get: 64 http://cdn-fastly.deb.debian.org/debian buster/main i386 doxygen i386 1.8.13-10 [4004 kB] Get: 65 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpng16-16 i386 1.6.36-6 [301 kB] Get: 66 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfreetype6 i386 2.9.1-3 [394 kB] Get: 67 http://cdn-fastly.deb.debian.org/debian buster/main i386 fonts-dejavu-core all 2.37-1 [1068 kB] Get: 68 http://cdn-fastly.deb.debian.org/debian buster/main i386 fontconfig-config all 2.13.1-2 [280 kB] Get: 69 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfontconfig1 i386 2.13.1-2 [357 kB] Get: 70 http://cdn-fastly.deb.debian.org/debian buster/main i386 fontconfig i386 2.13.1-2 [405 kB] Get: 71 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpixman-1-0 i386 0.36.0-1 [541 kB] Get: 72 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxau6 i386 1:1.0.8-1+b2 [20.3 kB] Get: 73 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 74 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb1 i386 1.13.1-2 [141 kB] Get: 75 http://cdn-fastly.deb.debian.org/debian buster/main i386 libx11-data all 2:1.6.7-1 [298 kB] Get: 76 http://cdn-fastly.deb.debian.org/debian buster/main i386 libx11-6 i386 2:1.6.7-1 [778 kB] Get: 77 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-render0 i386 1.13.1-2 [110 kB] Get: 78 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-shm0 i386 1.13.1-2 [99.4 kB] Get: 79 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxext6 i386 2:1.3.3-1+b2 [55.2 kB] Get: 80 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxrender1 i386 1:0.9.10-1 [34.1 kB] Get: 81 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcairo2 i386 1.16.0-4 [744 kB] Get: 82 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcdt5 i386 2.40.1-6 [61.0 kB] Get: 83 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcgraph6 i386 2.40.1-6 [88.1 kB] Get: 84 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjpeg62-turbo i386 1:1.5.2-2+b1 [142 kB] Get: 85 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjbig0 i386 2.1-3.1+b2 [31.5 kB] Get: 86 http://cdn-fastly.deb.debian.org/debian buster/main i386 libwebp6 i386 0.6.1-2 [275 kB] Get: 87 http://cdn-fastly.deb.debian.org/debian buster/main i386 libtiff5 i386 4.0.10-4 [268 kB] Get: 88 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxpm4 i386 1:3.5.12-1 [50.9 kB] Get: 89 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgd3 i386 2.2.5-5.2 [141 kB] Get: 90 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgts-0.7-5 i386 0.7.6+darcs121130-4 [161 kB] Get: 91 http://cdn-fastly.deb.debian.org/debian buster/main i386 libltdl7 i386 2.4.6-9 [392 kB] Get: 92 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfribidi0 i386 1.0.5-3.1 [64.1 kB] Get: 93 http://cdn-fastly.deb.debian.org/debian buster/main i386 libthai-data all 0.1.28-2 [170 kB] Get: 94 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdatrie1 i386 0.2.12-2 [40.7 kB] Get: 95 http://cdn-fastly.deb.debian.org/debian buster/main i386 libthai0 i386 0.1.28-2 [55.2 kB] Get: 96 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpango-1.0-0 i386 1.42.4-6 [191 kB] Get: 97 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgraphite2-3 i386 1.3.13-7 [84.0 kB] Get: 98 http://cdn-fastly.deb.debian.org/debian buster/main i386 libharfbuzz0b i386 2.3.1-1 [1209 kB] Get: 99 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpangoft2-1.0-0 i386 1.42.4-6 [70.7 kB] Get: 100 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpangocairo-1.0-0 i386 1.42.4-6 [57.1 kB] Get: 101 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpathplan4 i386 2.40.1-6 [64.0 kB] Get: 102 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxdot4 i386 2.40.1-6 [57.9 kB] Get: 103 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgvc6 i386 2.40.1-6 [676 kB] Get: 104 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgvpr2 i386 2.40.1-6 [223 kB] Get: 105 http://cdn-fastly.deb.debian.org/debian buster/main i386 x11-common all 1:7.7+19 [251 kB] Get: 106 http://cdn-fastly.deb.debian.org/debian buster/main i386 libice6 i386 2:1.0.9-2 [61.1 kB] Get: 107 http://cdn-fastly.deb.debian.org/debian buster/main i386 liblab-gamut1 i386 2.40.1-6 [220 kB] Get: 108 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsm6 i386 2:1.2.3-1 [35.7 kB] Get: 109 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxt6 i386 1:1.1.5-1+b3 [195 kB] Get: 110 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxmu6 i386 2:1.1.2-2+b3 [62.8 kB] Get: 111 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxaw7 i386 2:1.0.13-1+b2 [209 kB] Get: 112 http://cdn-fastly.deb.debian.org/debian buster/main i386 graphviz i386 2.40.1-6 [595 kB] Get: 113 http://cdn-fastly.deb.debian.org/debian buster/main i386 hdf5-helpers i386 1.10.4+repack-10 [35.2 kB] Get: 114 http://cdn-fastly.deb.debian.org/debian buster/main i386 libaec0 i386 1.0.2-1 [22.6 kB] Get: 115 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsz2 i386 1.0.2-1 [6720 B] Get: 116 http://cdn-fastly.deb.debian.org/debian buster/main i386 libaec-dev i386 1.0.2-1 [21.4 kB] Get: 117 http://cdn-fastly.deb.debian.org/debian buster/main i386 libboost1.67-dev i386 1.67.0-13 [8386 kB] Get: 118 http://cdn-fastly.deb.debian.org/debian buster/main i386 libboost-dev i386 1.67.0.1 [3864 B] Get: 119 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcppunit-1.14-0 i386 1.14.0-3 [149 kB] Get: 120 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcppunit-dev i386 1.14.0-3 [207 kB] Get: 121 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgfortran5 i386 8.3.0-6 [549 kB] Get: 122 http://cdn-fastly.deb.debian.org/debian buster/main i386 libhdf5-103 i386 1.10.4+repack-10 [1310 kB] Get: 123 http://cdn-fastly.deb.debian.org/debian buster/main i386 libhdf5-cpp-103 i386 1.10.4+repack-10 [155 kB] Get: 124 http://cdn-fastly.deb.debian.org/debian buster/main i386 zlib1g-dev i386 1:1.2.11.dfsg-1 [216 kB] Get: 125 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjpeg62-turbo-dev i386 1:1.5.2-2+b1 [226 kB] Get: 126 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjpeg-dev all 1:1.5.2-2 [57.5 kB] Get: 127 http://cdn-fastly.deb.debian.org/debian buster/main i386 libhdf5-dev i386 1.10.4+repack-10 [2738 kB] Get: 128 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjsoncpp-dev i386 1.7.4-3 [87.7 kB] Fetched 83.8 MB in 15s (5416 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 libncurses6:i386. Preparing to unpack .../006-libncurses6_6.1+20181013-2_i386.deb ... Unpacking libncurses6:i386 (6.1+20181013-2) ... Selecting previously unselected package libprocps7:i386. Preparing to unpack .../007-libprocps7_2%3a3.3.15-2_i386.deb ... Unpacking libprocps7:i386 (2:3.3.15-2) ... Selecting previously unselected package lsb-base. Preparing to unpack .../008-lsb-base_10.2019051400_all.deb ... Unpacking lsb-base (10.2019051400) ... Selecting previously unselected package procps. Preparing to unpack .../009-procps_2%3a3.3.15-2_i386.deb ... Unpacking procps (2:3.3.15-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../010-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../011-libmagic-mgc_1%3a5.35-4_i386.deb ... Unpacking libmagic-mgc (1:5.35-4) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../012-libmagic1_1%3a5.35-4_i386.deb ... Unpacking libmagic1:i386 (1:5.35-4) ... Selecting previously unselected package file. Preparing to unpack .../013-file_1%3a5.35-4_i386.deb ... Unpacking file (1:5.35-4) ... Selecting previously unselected package gettext-base. Preparing to unpack .../014-gettext-base_0.19.8.1-9_i386.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package ucf. Preparing to unpack .../015-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../016-libsigsegv2_2.12-2_i386.deb ... Unpacking libsigsegv2:i386 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../017-m4_1.4.18-2_i386.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../018-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../019-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../020-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../021-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package cmake-data. Preparing to unpack .../022-cmake-data_3.13.4-1_all.deb ... Unpacking cmake-data (3.13.4-1) ... Selecting previously unselected package libicu63:i386. Preparing to unpack .../023-libicu63_63.1-6_i386.deb ... Unpacking libicu63:i386 (63.1-6) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../024-libxml2_2.9.4+dfsg1-7+b3_i386.deb ... Unpacking libxml2:i386 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libarchive13:i386. Preparing to unpack .../025-libarchive13_3.3.3-4_i386.deb ... Unpacking libarchive13:i386 (3.3.3-4) ... Selecting previously unselected package libkeyutils1:i386. Preparing to unpack .../026-libkeyutils1_1.6-6_i386.deb ... Unpacking libkeyutils1:i386 (1.6-6) ... Selecting previously unselected package libkrb5support0:i386. Preparing to unpack .../027-libkrb5support0_1.17-3_i386.deb ... Unpacking libkrb5support0:i386 (1.17-3) ... Selecting previously unselected package libk5crypto3:i386. Preparing to unpack .../028-libk5crypto3_1.17-3_i386.deb ... Unpacking libk5crypto3:i386 (1.17-3) ... Selecting previously unselected package libssl1.1:i386. Preparing to unpack .../029-libssl1.1_1.1.1c-1_i386.deb ... Unpacking libssl1.1:i386 (1.1.1c-1) ... Selecting previously unselected package libkrb5-3:i386. Preparing to unpack .../030-libkrb5-3_1.17-3_i386.deb ... Unpacking libkrb5-3:i386 (1.17-3) ... Selecting previously unselected package libgssapi-krb5-2:i386. Preparing to unpack .../031-libgssapi-krb5-2_1.17-3_i386.deb ... Unpacking libgssapi-krb5-2:i386 (1.17-3) ... Selecting previously unselected package libsasl2-modules-db:i386. Preparing to unpack .../032-libsasl2-modules-db_2.1.27+dfsg-1_i386.deb ... Unpacking libsasl2-modules-db:i386 (2.1.27+dfsg-1) ... Selecting previously unselected package libsasl2-2:i386. Preparing to unpack .../033-libsasl2-2_2.1.27+dfsg-1_i386.deb ... Unpacking libsasl2-2:i386 (2.1.27+dfsg-1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../034-libldap-common_2.4.47+dfsg-3_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3) ... Selecting previously unselected package libldap-2.4-2:i386. Preparing to unpack .../035-libldap-2.4-2_2.4.47+dfsg-3_i386.deb ... Unpacking libldap-2.4-2:i386 (2.4.47+dfsg-3) ... Selecting previously unselected package libnghttp2-14:i386. Preparing to unpack .../036-libnghttp2-14_1.36.0-2_i386.deb ... Unpacking libnghttp2-14:i386 (1.36.0-2) ... Selecting previously unselected package libpsl5:i386. Preparing to unpack .../037-libpsl5_0.20.2-2_i386.deb ... Unpacking libpsl5:i386 (0.20.2-2) ... Selecting previously unselected package librtmp1:i386. Preparing to unpack .../038-librtmp1_2.4+20151223.gitfa8646d.1-2_i386.deb ... Unpacking librtmp1:i386 (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libssh2-1:i386. Preparing to unpack .../039-libssh2-1_1.8.0-2.1_i386.deb ... Unpacking libssh2-1:i386 (1.8.0-2.1) ... Selecting previously unselected package libcurl4:i386. Preparing to unpack .../040-libcurl4_7.64.0-4_i386.deb ... Unpacking libcurl4:i386 (7.64.0-4) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../041-libexpat1_2.2.6-1_i386.deb ... Unpacking libexpat1:i386 (2.2.6-1) ... Selecting previously unselected package libjsoncpp1:i386. Preparing to unpack .../042-libjsoncpp1_1.7.4-3_i386.deb ... Unpacking libjsoncpp1:i386 (1.7.4-3) ... Selecting previously unselected package librhash0:i386. Preparing to unpack .../043-librhash0_1.3.8-1_i386.deb ... Unpacking librhash0:i386 (1.3.8-1) ... Selecting previously unselected package libuv1:i386. Preparing to unpack .../044-libuv1_1.24.1-1_i386.deb ... Unpacking libuv1:i386 (1.24.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../045-cmake_3.13.4-1_i386.deb ... Unpacking cmake (3.13.4-1) ... Selecting previously unselected package d-shlibs. Preparing to unpack .../046-d-shlibs_0.84_all.deb ... Unpacking d-shlibs (0.84) ... Selecting previously unselected package libtool. Preparing to unpack .../047-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../048-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../049-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../050-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../051-dh-strip-nondeterminism_1.1.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../052-libelf1_0.176-1.1_i386.deb ... Unpacking libelf1:i386 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../053-dwz_0.12-3_i386.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../054-libglib2.0-0_2.58.3-2_i386.deb ... Unpacking libglib2.0-0:i386 (2.58.3-2) ... Selecting previously unselected package libcroco3:i386. Preparing to unpack .../055-libcroco3_0.6.12-3_i386.deb ... Unpacking libcroco3:i386 (0.6.12-3) ... Selecting previously unselected package gettext. Preparing to unpack .../056-gettext_0.19.8.1-9_i386.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../057-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../058-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../059-debhelper_12.1.1_all.deb ... Unpacking debhelper (12.1.1) ... Selecting previously unselected package libedit2:i386. Preparing to unpack .../060-libedit2_3.1-20181209-1_i386.deb ... Unpacking libedit2:i386 (3.1-20181209-1) ... Selecting previously unselected package libllvm6.0:i386. Preparing to unpack .../061-libllvm6.0_1%3a6.0.1-10_i386.deb ... Unpacking libllvm6.0:i386 (1:6.0.1-10) ... Selecting previously unselected package libclang1-6.0:i386. Preparing to unpack .../062-libclang1-6.0_1%3a6.0.1-10_i386.deb ... Unpacking libclang1-6.0:i386 (1:6.0.1-10) ... Selecting previously unselected package doxygen. Preparing to unpack .../063-doxygen_1.8.13-10_i386.deb ... Unpacking doxygen (1.8.13-10) ... Selecting previously unselected package libpng16-16:i386. Preparing to unpack .../064-libpng16-16_1.6.36-6_i386.deb ... Unpacking libpng16-16:i386 (1.6.36-6) ... Selecting previously unselected package libfreetype6:i386. Preparing to unpack .../065-libfreetype6_2.9.1-3_i386.deb ... Unpacking libfreetype6:i386 (2.9.1-3) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../066-fonts-dejavu-core_2.37-1_all.deb ... Unpacking fonts-dejavu-core (2.37-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../067-fontconfig-config_2.13.1-2_all.deb ... Unpacking fontconfig-config (2.13.1-2) ... Selecting previously unselected package libfontconfig1:i386. Preparing to unpack .../068-libfontconfig1_2.13.1-2_i386.deb ... Unpacking libfontconfig1:i386 (2.13.1-2) ... Selecting previously unselected package fontconfig. Preparing to unpack .../069-fontconfig_2.13.1-2_i386.deb ... Unpacking fontconfig (2.13.1-2) ... Selecting previously unselected package libpixman-1-0:i386. 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I: Building the package I: Running cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package gatb-core dpkg-buildpackage: info: source version 1.4.1+git20181225.44d5a44+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean --sourcedirectory=gatb-core dh_auto_clean -O--sourcedirectory=gatb-core dh_autoreconf_clean -O--sourcedirectory=gatb-core dh_clean -O--sourcedirectory=gatb-core debian/rules build dh build --sourcedirectory=gatb-core dh_update_autotools_config -O--sourcedirectory=gatb-core dh_autoreconf -O--sourcedirectory=gatb-core dh_auto_configure -O--sourcedirectory=gatb-core cd obj-i686-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu ../gatb-core -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- CppUnit: found headers (in /usr/include) but not the static library (/usr/include/../lib/libcppunit.a) -- CppUnit FOUND (/usr/include) -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of __uint128 -- Check size of __uint128 - failed -- Check size of __uint128_t -- Check size of __uint128_t - failed -- SSE 4.2 detected -- Options: -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -- HDF5: Using hdf5 compiler wrapper to determine C configuration -- Found HDF5: /usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/i386-linux-gnu/libpthread.so;/usr/lib/i386-linux-gnu/libsz.so;/usr/lib/i386-linux-gnu/libz.so;/usr/lib/i386-linux-gnu/libdl.so;/usr/lib/i386-linux-gnu/libm.so (found version "1.10.4") -- HDF5_LIBRARIES="/usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so/usr/lib/i386-linux-gnu/libpthread.so/usr/lib/i386-linux-gnu/libsz.so/usr/lib/i386-linux-gnu/libz.so/usr/lib/i386-linux-gnu/libdl.so/usr/lib/i386-linux-gnu/libm.so" -- OPTIMIZED KMER SIZES INTERVALS ARE 32 64 96 128 <-- max supported kmer size without recompilation CMake Warning (dev) at CMakeLists.txt:238 (set): Cannot set "gatb-core-klist": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. -- ---------- GATB TESTS ---------- -- ---------- GATB TOOLS ---------- DYNAMIC BINARIES for dbgh5 DYNAMIC BINARIES for dbginfo DYNAMIC BINARIES for leon -- Found HDF5: /usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/i386-linux-gnu/libpthread.so;/usr/lib/i386-linux-gnu/libsz.so;/usr/lib/i386-linux-gnu/libz.so;/usr/lib/i386-linux-gnu/libdl.so;/usr/lib/i386-linux-gnu/libm.so (found version "1.10.4") found components: C CMake Warning (dev) at CMakeLists.txt:265 (set): Cannot set "gatb-core-flags": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:266 (set): Cannot set "gatb-core-includes": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:267 (set): Cannot set "gatb-core-libraries": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:268 (set): Cannot set "gatb-core-cmake": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. -- Found Doxygen: /usr/bin/doxygen (found version "1.8.13") found components: doxygen dot -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg' dh_auto_build -a cd obj-i686-linux-gnu && make -j18 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' /usr/bin/cmake -S/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core -B/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/CMakeFiles /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/depend make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/depend make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/depend make[4]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/thirdparty /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/thirdparty/CMakeFiles/thirdparty_copy.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/CMakeFiles/gatbcore-dynamic.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/CMakeFiles/gatbcore-static.dir/DependInfo.cmake --color= Scanning dependencies of target thirdparty_copy make[4]: Leaving directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/build make[4]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/json cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty/BooPHF/BooPHF.h /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/ cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty/json/json.hpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/json/ make[4]: Leaving directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' [ 0%] Built target thirdparty_copy Scanning dependencies of target gatbcore-dynamic make[4]: Leaving directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/build Scanning dependencies of target gatbcore-static make[4]: Leaving directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/build make[4]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' make[4]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' [ 0%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp [ 0%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp [ 1%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o [ 1%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankAlbum.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankAlbum.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp [ 2%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/Bank.cpp.o [ 2%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o [ 3%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o [ 3%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankFasta.cpp.o [ 4%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/Bank.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp [ 4%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankFasta.cpp.o [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankHelpers.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankFasta.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankHelpers.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankRandom.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp [ 6%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankSplitter.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankRandom.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankSplitter.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankBinary.cpp.o [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bglue_algo.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankFasta.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankSplitter.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankBinary.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bglue_algo.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bcalm_algo.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankSplitter.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function 'bool gatb::core::bank::impl::checkMagic(FILE*)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:54:11: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread (&value, sizeof(value), 1, file); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function 'bool gatb::core::bank::impl::checkMagic(FILE*)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:54:11: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread (&value, sizeof(value), 1, file); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In member function 'virtual void gatb::core::bank::impl::BankBinary::Iterator::next()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:453:15: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread (_bufferData->getBuffer(), sizeof( char),block_size, binary_read_file); // read a block of reads into the buffer ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In member function 'virtual void gatb::core::bank::impl::BankBinary::Iterator::next()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:453:15: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread (_bufferData->getBuffer(), sizeof( char),block_size, binary_read_file); // read a block of reads into the buffer ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 8%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bcalm_algo.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/logging.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/logging.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bglue_algo.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bglue_algo.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/ograph.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/ograph.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/logging.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/logging.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp [ 10%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/ograph.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/ograph.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp: In function 'long unsigned int gatb::core::debruijn::impl::logging(std::__cxx11::string)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp:31:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] snprintf (tmp, sizeof(tmp), " memory [current, maxRSS]: [%4lu, %4lu] MB ", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mem, memMaxProcess); ~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp:31:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 5 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] [ 11%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Frontline.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Frontline.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Graph.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Graph.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp: In function 'long unsigned int gatb::core::debruijn::impl::logging(std::__cxx11::string)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp:31:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] snprintf (tmp, sizeof(tmp), " memory [current, maxRSS]: [%4lu, %4lu] MB ", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mem, memMaxProcess); ~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp:31:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 5 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] [ 11%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp [ 12%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Frontline.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Frontline.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp [ 13%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp [ 13%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/LinkTigs.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 14%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Graph.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Graph.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Simplifications.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp [ 15%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp [ 15%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Terminator.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Terminator.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp [ 16%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Traversal.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Traversal.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 16%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 16%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/LinkTigs.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 17%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Simplifications.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp [ 18%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 18%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Terminator.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Terminator.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 18%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Traversal.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Traversal.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 18%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomBuilder.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 18%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Configuration.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Configuration.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 19%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 19%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 20%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 21%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomBuilder.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 21%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Configuration.cpp.o [ 22%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Configuration.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/LinearCounter.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/LinearCounter.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/LinearCounter.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 22%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Model.cpp.o In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Model.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ModelData.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ModelData.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/ModelData.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartiInfo.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartiInfo.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartitionsCommand.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartitionsCommand.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp [ 26%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp [ 26%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemCommon.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp [ 27%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 28%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemLinux.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp [ 28%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp: In member function 'void gatb::core::kmer::impl::Repartitor::printInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp:308:12: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'size_t' {aka 'unsigned int'} [-Wformat=] printf("Repartitor : nbMinimizers=%ld\n", nbMinimizers); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp:309:61: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] for (u_int64_t ii=0; ii::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 36%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Algorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp [ 37%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Histogram.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp [ 37%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/OptionsParser.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemCommon.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemLinux.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Progress.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Progress.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp [ 39%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Property.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Property.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemMacos.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemMacos.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemMacos.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/System.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/System.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/System.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp: In member function 'void gatb::core::kmer::impl::Repartitor::printInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp:308:12: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'size_t' {aka 'unsigned int'} [-Wformat=] printf("Repartitor : nbMinimizers=%ld\n", nbMinimizers); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp:309:61: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] for (u_int64_t ii=0; ii::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/SystemInfoCommon.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/SystemInfoCommon.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/SystemInfoCommon.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp: In member function 'virtual void gatb::core::tools::misc::impl::Properties::setInt(const string&, const int64_t&)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp:438:39: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int64_t' {aka 'long long int'} [-Wformat=] snprintf (buffer, sizeof(buffer), "%ld", value); ^~~~~ ~~~~~ [ 41%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadLinux.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadLinux.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::createBloom()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:323:47: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Abundance threshold"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:328:49: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Abundance threshold"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::executeCompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:404:43: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Input format: FastQ"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:410:66: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Quality compression: LOSSLESS mode"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:412:106: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Quality compression: lossy mode (use '-lossless' for lossless compression)"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:422:43: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Input format: FastA"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:429:123: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Input format: unknown. Input extension must be one among fasta (.fa, .fasta) or fastq (.fq, .fastq)"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::endCompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:727:40: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add(0, "End compression"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::endHeaderCompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:883:44: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add(0, "End Header compression"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::endDnaCompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:970:47: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add(0, "End Sequence compression"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::executeDecompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:1429:38: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add(0, "Decompression"); ^ [ 41%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadMacos.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadMacos.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/ThreadMacos.cpp [ 42%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/collections/impl/Bloom.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/collections/impl/Bloom.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.cpp [ 42%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/DnaCoder.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/DnaCoder.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp: In member function 'virtual void gatb::core::tools::misc::impl::ProgressTimerAndSystem::fillBuffer(double)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:350:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 5 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] snprintf (tmp, sizeof(tmp), " cpu: %5.1f %% mem: [%4lu, %4lu, %4lu] MB ", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:352:9: mem, _memMax, memMaxProcess ~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:350:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 6 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:350:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 7 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp: In constructor 'gatb::core::system::impl::ThreadLinux::ThreadLinux(void* (*)(void*), void*)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp:51:7: warning: variable 'ret' set but not used [-Wunused-but-set-variable] int ret = pthread_attr_init ( &tattr ) ; ^~~ [ 42%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/HeaderCoder.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/HeaderCoder.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 43%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/Leon.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/Leon.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:71, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ [ 43%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/TimeInfo.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp [ 43%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/RangeCoder.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/RangeCoder.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/RangeCoder.cpp [ 44%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Command.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Command.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Command.cpp [ 44%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Observer.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Observer.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Observer.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function 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CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/XmlReader.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 46%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Algorithm.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp [ 46%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Histogram.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp [ 47%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/Storage.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/Storage.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp [ 48%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/OptionsParser.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 48%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Progress.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Progress.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp [ 48%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/StorageTools.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 50%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp [ 50%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::createBloom()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:323:47: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Abundance threshold"); ^ cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:328:49: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Abundance threshold"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::executeCompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:404:43: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Input format: FastQ"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:410:66: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Quality compression: LOSSLESS mode"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:412:106: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Quality compression: lossy mode (use '-lossless' for lossless compression)"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:422:43: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Input format: FastA"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:429:123: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add (0, "Input format: unknown. Input extension must be one among fasta (.fa, .fasta) or fastq (.fq, .fastq)"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::endCompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:727:40: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add(0, "End compression"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::endHeaderCompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:883:44: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add(0, "End Header compression"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::endDnaCompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:970:47: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add(0, "End Sequence compression"); ^ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function 'void Leon::executeDecompression()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:1429:38: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] getInfo()->add(0, "Decompression"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp: In member function 'virtual void gatb::core::tools::misc::impl::ProgressTimerAndSystem::fillBuffer(double)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:350:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 5 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] snprintf (tmp, sizeof(tmp), " cpu: %5.1f %% mem: [%4lu, %4lu, %4lu] MB ", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:352:9: mem, _memMax, memMaxProcess ~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:350:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 6 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:350:33: warning: format '%lu' expects argument of type 'long unsigned int', but argument 7 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:71, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 50%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Property.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Property.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:13:17: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 51%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/TimeInfo.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp [ 51%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp [ 51%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tokenizer.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Tokenizer.cpp [ 52%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp [ 52%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp: In member function 'virtual void gatb::core::tools::misc::impl::Properties::setInt(const string&, const int64_t&)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp:438:39: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int64_t' {aka 'long long int'} [-Wformat=] snprintf (buffer, sizeof(buffer), "%ld", value); ^~~~~ ~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:13:17: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 53%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tool.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tool.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Tool.cpp [ 53%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/XmlReader.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/XmlReader.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 54%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:13:17: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:13:17: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 54%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/Storage.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/Storage.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp [ 54%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp [ 55%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/StorageTools.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of 'void gatb::core::debruijn::impl::graph3::debruijn() [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:31:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable 'debug_index' [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of 'uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 128; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of 'void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 128; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable 'first_index' [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ [ 55%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 56%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 56%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of 'void gatb::core::debruijn::impl::graph3::debruijn() [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:31:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable 'debug_index' [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of 'uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 32; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of 'void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 32; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable 'first_index' [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 56%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:13:17: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 57%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of 'void gatb::core::debruijn::impl::graph3::debruijn() [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:31:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable 'debug_index' [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ [ 57%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of 'uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 64; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of 'void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 64; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable 'first_index' [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<32>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<32>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<32>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<32>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:13:17: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 58%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:13:17: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 58%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:13:17: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of 'void gatb::core::debruijn::impl::graph3::debruijn() [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:31:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable 'debug_index' [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 128]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ [ 59%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of 'uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 128; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of 'void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 128; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable 'first_index' [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of 'void gatb::core::debruijn::impl::graph3::debruijn() [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:31:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable 'debug_index' [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ [ 59%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:159:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'void gatb::core::kmer::impl::CountProcessorHistogram::end() [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:191:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:195:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of 'uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 96; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: required from 'void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 128; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<128>::SuperKmer]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of 'void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 96; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable 'first_index' [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 32]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:159:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'void gatb::core::kmer::impl::CountProcessorHistogram::end() [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:191:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:195:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: required from 'void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 32; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<>::SuperKmer]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ [ 59%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 96]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:159:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'void gatb::core::kmer::impl::CountProcessorHistogram::end() [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:191:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:195:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: required from 'void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 64; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<64>::SuperKmer]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:159:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'void gatb::core::kmer::impl::CountProcessorHistogram::end() [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:191:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:195:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: required from 'void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 96; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<96>::SuperKmer]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ [ 60%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp [ 60%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp [ 60%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of 'void gatb::core::debruijn::impl::graph3::debruijn() [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:31:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable 'debug_index' [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ [ 61%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of 'uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 32; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of 'void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 32; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable 'first_index' [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of 'void gatb::core::debruijn::impl::graph3::debruijn() [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:31:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable 'debug_index' [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of 'uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 64; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<32>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<32>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<32>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<32>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of 'void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 64; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable 'first_index' [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 128]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of 'void gatb::core::debruijn::impl::graph3::debruijn() [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:31:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable 'debug_index' [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of 'uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 96; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'std::unordered_map, std::equal_to, std::allocator > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<128>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of 'void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: required from 'void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with unsigned int SPAN = 96; std::__cxx11::string = std::__cxx11::basic_string]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable 'first_index' [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:159:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'void gatb::core::kmer::impl::CountProcessorHistogram::end() [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:191:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:195:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 128]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: required from 'void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 128; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<128>::SuperKmer]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 32]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<32>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:159:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'void gatb::core::kmer::impl::CountProcessorHistogram::end() [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:191:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:195:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 32]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: required from 'void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 32; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<>::SuperKmer]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ [ 61%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 61%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<64>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:159:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'void gatb::core::kmer::impl::CountProcessorHistogram::end() [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:191:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:195:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 64]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: required from 'void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 64; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<64>::SuperKmer]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ [ 62%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp [ 62%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp [ 63%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp [ 64%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 64%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of 'std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from 'void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 96]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of 'void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 128; Abundance_t = unsigned char; NodeState_t = unsigned char]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable 'abundance' [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<96>]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:150:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:159:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'void gatb::core::kmer::impl::CountProcessorHistogram::end() [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of 'gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:191:35: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:195:20: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of 'void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 96]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: required from 'void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 96; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<96>::SuperKmer]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ [ 64%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp [ 64%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp [ 65%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp [ 65%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of 'void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 32; Abundance_t = unsigned char; NodeState_t = unsigned char]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable 'abundance' [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of 'void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 64; Abundance_t = unsigned char; NodeState_t = unsigned char]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable 'abundance' [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of 'void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 96; Abundance_t = unsigned char; NodeState_t = unsigned char]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable 'abundance' [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:7: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 67%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp [ 67%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:7: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:7: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:7: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp [ 68%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 69%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp [ 70%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ [ 70%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ [ 70%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:18:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set > >, std::less > > >, std::allocator > > > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt8'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: 'class gatb::core::tools::math::NativeInt8' declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of 'void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 128; Abundance_t = unsigned char; NodeState_t = unsigned char]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable 'abundance' [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:18:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set > >, std::less > > >, std::allocator > > > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:18:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set > >, std::less > > >, std::allocator > > > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of 'void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 32; Abundance_t = unsigned char; NodeState_t = unsigned char]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable 'abundance' [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 70%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp [ 71%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 71%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp [ 71%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 72%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:18:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set > >, std::less > > >, std::allocator > > > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 72%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of 'void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 64; Abundance_t = unsigned char; NodeState_t = unsigned char]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable 'abundance' [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of 'void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 96; Abundance_t = unsigned char; NodeState_t = unsigned char]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable 'abundance' [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:7: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 73%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp [ 73%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp [ 75%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp [ 75%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:7: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 75%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ [ 76%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp [ 76%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:7: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 77%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:7: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 77%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:18:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set > >, std::less > > >, std::allocator > > > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 78%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:18:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set > >, std::less > > >, std::allocator > > > >::size_type' {aka 'unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:18:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set > >, std::less > > >, std::allocator > > > >::size_type' {aka 'unsigned int'} [-Wformat=] [ 78%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type' {aka 'unsigned int'} [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of 'bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:18:16: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::set > >, std::less > > >, std::allocator > > > >::size_type' {aka 'unsigned int'} [-Wformat=] [ 79%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp [ 79%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 79%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 79%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 80%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:2: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 81%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<128>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<128>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<96>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<96>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<64>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<64>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ [ 81%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 81%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [ 82%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [ 82%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp [ 82%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 83%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 83%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 83%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp [ 84%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 84%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [ 85%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [ 85%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:3: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function 'static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to 'va_list' {aka 'char*'} [-Wwrite-strings] props->add (0, "host"); ^ [ 86%] Linking CXX static library ../lib/None/libgatbcore.a cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/gatbcore-static.dir/cmake_clean_target.cmake cd 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CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o 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/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijnUnitigs.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplificationsUnitigs.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDebloom.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmer.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestKmer.cpp [ 92%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDSK.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDSK.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestDSK.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp: In member function 'void gatb::tests::TestBank::bank_checkSample1_aux(const string&, gatb::core::bank::impl::BankFasta::Iterator::CommentMode_e)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp:118:47: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] snprintf (buffer, sizeof(buffer), "seq%ld%s", i+1, (mode == BankFasta::Iterator::FULL ? " generic" : "")); ^~~~~~~~~~ ~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp: In member function 'void gatb::tests::TestBank::bank_checkSample2_aux(const string&)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp:187:47: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] snprintf (buffer, sizeof(buffer), "seq%ld", nbSeq+1); ^~~~~~~~ ~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp: In member function 'void gatb::tests::TestBank::bank_perf1()': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp:678:17: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'u_int64_t' {aka 'long long unsigned int'} [-Wformat=] printf ("size=%ld time=%ld => rate=%.3f MB/s \n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ totalSize, t1-t0, ~~~~~~~~~ /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp:678:17: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'gatb::core::system::ITime::Value' {aka 'long long unsigned int'} [-Wformat=] In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestSimplifications.cpp:33: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools/dbginfo.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp:33: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools/leon.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools/dbgh5.cpp:20: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp:33: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp:32: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijn.cpp:33: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp:25: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'struct gatb::core::kmer::impl::Kmer<>::Count' with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp:25: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: 'struct gatb::core::kmer::impl::Kmer<>::Count' declared here struct Count : tools::misc::Abundance ^~~~~ [ 93%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmerBank.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmerBank.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestKmerBank.cpp [ 93%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestMPHF.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestMPHF.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools/dbgh5.cpp: In function 'void sendEmail(gatb::core::tools::misc::IProperties*, gatb::core::tools::misc::IProperties*)': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools/dbgh5.cpp:127:13: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] ::system (cmd.str().c_str()); ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable ../bin/None/leon cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/leon.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/leon.dir/leon.cpp.o -o ../bin/None/leon -Wl,-rpath,/usr/lib/i386-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm [ 94%] Linking CXX executable ../bin/None/dbginfo cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/dbginfo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/dbginfo.dir/dbginfo.cpp.o -o ../bin/None/dbginfo -Wl,-rpath,/usr/lib/i386-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp:27: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ [ 94%] Linking CXX executable ../bin/None/dbgh5 cd 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-I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/main.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/main.cpp [ 95%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/system/TestSystem.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/system/TestSystem.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/system/TestSystem.cpp [ 95%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestBag.cpp.o cd 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test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestCollection.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestCollection.cpp.o -c 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CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestContainer.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestContainer.cpp make[4]: Leaving directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' [ 96%] Built target dbginfo [ 97%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestIterable.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestIterable.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestIterable.cpp [ 97%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestMap.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestMap.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp make[4]: Leaving directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' [ 97%] Built target dbgh5 [ 97%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/designpattern/TestIterators.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/designpattern/TestIterators.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/designpattern/TestIterators.cpp [ 98%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/math/TestMath.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/math/TestMath.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/math/TestMath.cpp [ 98%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/misc/TestMisc.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/misc/TestMisc.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/misc/TestMisc.cpp [100%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/storage/TestStorage.cpp.o cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/storage/TestStorage.cpp.o -c /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp:24: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function 'void boomphf::bitVector::print() const': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:11: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp:23: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of 'gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = unsigned int]': /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from 'gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]' /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class gatb::core::tools::math::NativeInt64'; use assignment or value-initialization instead [-Wclass-memaccess] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp:31: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: 'class gatb::core::tools::math::NativeInt64' declared here class NativeInt64 ^~~~~~~~~~~ [100%] Linking CXX shared library ../lib/None/libgatbcore.so cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/src && 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CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o [100%] Linking CXX executable ../../bin/None/gatb-core-cppunit cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/cmake -E cmake_link_script CMakeFiles/gatb-core-cppunit.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/gatb-core-cppunit.dir/src/bank/TestBank.cpp.o 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'/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg' dh_auto_test -O--sourcedirectory=gatb-core create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --sourcedirectory=gatb-core dh_testroot -O--sourcedirectory=gatb-core dh_prep -O--sourcedirectory=gatb-core dh_auto_install -O--sourcedirectory=gatb-core cd obj-i686-linux-gnu && make -j18 install DESTDIR=/build/gatb-core-1.4.1\+git20181225.44d5a44\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' /usr/bin/cmake -S/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core -B/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/CMakeFiles /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/depend make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/depend make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/depend make[3]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/thirdparty 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tools/CMakeFiles/dbginfo.dir/depend make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/depend make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/depend [ 86%] Built target gatbcore-dynamic make[3]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/tools /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/tools/CMakeFiles/dbginfo.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/tools /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/tools/CMakeFiles/dbgh5.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' cd /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu/tools 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/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionHDF5Patch.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageTools.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Storage.tpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionHDF5.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Storage.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageHDF5.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Cell.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/storage/api -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/storage/api/ICell.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/compression -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/compression/Leon.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/compression/CompressionUtils.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/compression/HeaderCoder.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/compression/DnaCoder.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/compression/RangeCoder.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/designpattern -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/IteratorHelpers.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/Observer.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/Command.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/ICommand.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/IObserver.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/Iterator.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorProxy.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/PartitionsCommand.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorSolidity.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BankKmers.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Model.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BankKmerIterator.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/SortingCountAlgorithm.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorChain.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BloomAlgorithm.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Sequence2SuperKmer.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/MPHFAlgorithm.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BloomBuilder.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/PartiInfo.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithmFactory.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomMinimizerAlgorithm.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/LinearCounter.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Model.pri -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/ConfigurationAlgorithm.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Configuration.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorDump.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorAbstract.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorHistogram.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessor.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithm.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorCutoff.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/RepartitionAlgorithm.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithm.pri -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/api -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/api/ICountProcessor.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/api/IModel.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/config.hpp -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test/gatb-core-cppunit -- Set runtime path of "/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test/gatb-core-cppunit" to "" -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample1.fa -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample.fastq.gz -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/leon1.fastq -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads1.fa.gz -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads1.fa -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/leon2.fastq.leon-ref -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample1.fa.gz -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/query.fa.gz -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/celegans_reads.h5 -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/query.fa -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads3.fa.gz -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample.fastq -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/album.txt -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads1_list_ids.txt -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/microsnp.fa -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/README.md -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample2.fa -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/leon2.fastq -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads2.fa -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/leon1.fastq.leon-ref -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/dbgh5 -- Set runtime path of "/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/dbgh5" to "" -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/dbginfo -- Set runtime path of "/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/dbginfo" to "" -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/leon -- Set runtime path of "/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/leon" to "" -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/BooPHF -- Installing: /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/BooPHF/BooPHF.h make[1]: Leaving directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-i686-linux-gnu' debian/rules override_dh_install-arch make[1]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg' d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include usr \ --movedev gatb-core/cmake usr/lib \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility set -e install -d -m 755 debian/libgatbcore-dev/usr/lib/i386-linux-gnu install -d -m 755 debian/libgatbcore2/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/libgatbcore.a debian/libgatbcore-dev/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/libgatbcore.so debian/libgatbcore-dev/usr/lib/i386-linux-gnu mv /build/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/lib/i386-linux-gnu/libgatbcore.so.2 debian/libgatbcore2/usr/lib/i386-linux-gnu PKGDEV=libgatbcore-dev PKGSHL=libgatbcore2 install -d -m 755 debian/libgatbcore-dev/usr mv debian/tmp/usr/include debian/libgatbcore-dev/usr install -d -m 755 debian/libgatbcore-dev/usr/lib/i386-linux-gnu mv gatb-core/cmake debian/libgatbcore-dev/usr/lib/i386-linux-gnu mkdir -p debian/gatb-core/usr/lib/gatb-core dh_install -a make[1]: Leaving directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg' debian/rules override_dh_install-indep make[1]: Entering directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg' dh_install -i mkdir -p debian/gatb-core/usr/lib/gatb-core mv debian/gatb-core-testdata/usr/share/doc/gatb-core/test/gatb-core-cppunit debian/gatb-core/usr/lib/gatb-core make[1]: Leaving directory '/build/gatb-core-1.4.1+git20181225.44d5a44+dfsg' dh_installdocs -O--sourcedirectory=gatb-core dh_installchangelogs -O--sourcedirectory=gatb-core dh_installexamples -O--sourcedirectory=gatb-core dh_installman -O--sourcedirectory=gatb-core dh_installinit -O--sourcedirectory=gatb-core dh_installsystemduser -O--sourcedirectory=gatb-core dh_perl -O--sourcedirectory=gatb-core dh_link -O--sourcedirectory=gatb-core dh_strip_nondeterminism -O--sourcedirectory=gatb-core dh_compress -O--sourcedirectory=gatb-core dh_fixperms -O--sourcedirectory=gatb-core dh_missing -O--sourcedirectory=gatb-core dh_dwz -O--sourcedirectory=gatb-core dh_strip -O--sourcedirectory=gatb-core dh_makeshlibs -O--sourcedirectory=gatb-core dh_shlibdeps -O--sourcedirectory=gatb-core dpkg-shlibdeps: warning: symbol gzseek used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Fcreate used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Tcopy used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol pthread_join used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5T_NATIVE_UINT16_g used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Pcreate used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Adelete used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5P_CLS_DATASET_CREATE_ID_g used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Sselect_hyperslab used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol gzwrite used by debian/libgatbcore2/usr/lib/i386-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: 57 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/gatb-core/usr/bin/dbgh5 debian/gatb-core/usr/bin/leon debian/gatb-core/usr/lib/gatb-core/gatb-core-cppunit debian/gatb-core/usr/bin/dbginfo were not linked against libsz.so.2 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/gatb-core/usr/bin/dbgh5 debian/gatb-core/usr/bin/leon debian/gatb-core/usr/lib/gatb-core/gatb-core-cppunit debian/gatb-core/usr/bin/dbginfo were not linked against libdl.so.2 (they use none of the library's symbols) dh_installdeb -O--sourcedirectory=gatb-core dh_gencontrol -O--sourcedirectory=gatb-core dpkg-gencontrol: warning: Depends field of package libgatbcore-dev: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: Depends field of package gatb-core-testdata: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--sourcedirectory=gatb-core dh_builddeb -O--sourcedirectory=gatb-core dpkg-deb: building package 'gatb-core' in '../gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb'. dpkg-deb: building package 'gatb-core-dbgsym' in '../gatb-core-dbgsym_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb'. dpkg-deb: building package 'libgatbcore2' in '../libgatbcore2_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb'. dpkg-deb: building package 'libgatbcore2-dbgsym' in '../libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb'. dpkg-deb: building package 'libgatbcore-dev' in '../libgatbcore-dev_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb'. dpkg-deb: building package 'gatb-core-testdata' in '../gatb-core-testdata_1.4.1+git20181225.44d5a44+dfsg-3_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_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/31135 and its subdirectories I: Current time: Wed Jul 29 04:47:58 -12 2020 I: pbuilder-time-stamp: 1596041278 Thu Jun 27 10:24:59 UTC 2019 I: 1st build successful. Starting 2nd build on remote node profitbricks-build12-i386.debian.net. Thu Jun 27 10:25:00 UTC 2019 I: Preparing to do remote build '2' on profitbricks-build12-i386.debian.net. Thu Jun 27 11:13:26 UTC 2019 I: Deleting $TMPDIR on profitbricks-build12-i386.debian.net. Thu Jun 27 11:13:26 UTC 2019 I: gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.changes: Format: 1.8 Date: Wed, 19 Jun 2019 12:25:30 +0200 Source: gatb-core Binary: gatb-core gatb-core-dbgsym gatb-core-testdata libgatbcore-dev libgatbcore2 libgatbcore2-dbgsym Architecture: i386 all Version: 1.4.1+git20181225.44d5a44+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: gatb-core - Genome Analysis Toolbox with de-Bruijn graph gatb-core-testdata - Genome Analysis Toolbox with de-Bruijn graph (test data) libgatbcore-dev - development library of the Genome Analysis Toolbox libgatbcore2 - dynamic library of the Genome Analysis Toolbox Closes: 930368 Changes: gatb-core (1.4.1+git20181225.44d5a44+dfsg-3) unstable; urgency=medium . * Fix symbols Closes: #930368 Checksums-Sha1: a507b12adaf75b5bcc1652b1961e9a5c073dcdc3 80730592 gatb-core-dbgsym_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb a8059fe67144262cc3c1dc78f9f7419e99d78d4b 1794540 gatb-core-testdata_1.4.1+git20181225.44d5a44+dfsg-3_all.deb 44366af6634cc0ffdc704f1c29bd770833923e36 9198 gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.buildinfo 0fab1f943f8c57096f698c487ecea4514d7393f4 3646920 gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb bcab47beb9c74fbe196f99b42c4a6060a2abbf23 4118672 libgatbcore-dev_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb 9cfca6425156eaee3bb2b23827f2920fb5a19530 45049996 libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb 232653e4d68ba99d568406a7fed87925b2b1e2cd 1886704 libgatbcore2_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb Checksums-Sha256: 602b715b58b3566effc2b79b17004e377c1cf2be52329650d755f05656b82c91 80730592 gatb-core-dbgsym_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb 4780f16969d7dc2a2ea25f70d2a176efa3a2ad0867c27ba27b6c7e21c090c76a 1794540 gatb-core-testdata_1.4.1+git20181225.44d5a44+dfsg-3_all.deb a39bb3b84ce27868bc1f9948d9fd3c410b733b56e325799068954b05a8a590ba 9198 gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.buildinfo bc17775e5508b982f4ed022d6c8a888fb33d58f388a577e2556f05298bdb4fee 3646920 gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb a84c2e31810a712823f494545d98e8546c04adf3b5306ef62f2b5433880c095b 4118672 libgatbcore-dev_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb 45766c173d64af4f5ecf0339f3e30224eeabd32c80ae5595353c1caa6e34e45a 45049996 libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb d21d89ec89245d0320759063e842f2e7d41e13c3453f6e1819e4576ce86313a5 1886704 libgatbcore2_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb Files: c1f9f77b96927ef07c9a50680385a3a8 80730592 debug optional gatb-core-dbgsym_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb 6ca42f7520793cae90b60ea1a3ef93a5 1794540 science optional gatb-core-testdata_1.4.1+git20181225.44d5a44+dfsg-3_all.deb 39c72c575ee647f20108cd15424f4bb9 9198 science optional gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.buildinfo 74e8c44e95af5733f45b2746db3d3d50 3646920 science optional gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb 7807ba43e4b171036c49b6be41f97472 4118672 libdevel optional libgatbcore-dev_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb 0c77d44fb326b32d3c68b5dc7f0d73d2 45049996 debug optional libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb b2df37b4f77aa26440cfb8461df6d610 1886704 libs optional libgatbcore2_1.4.1+git20181225.44d5a44+dfsg-3_i386.deb Thu Jun 27 11:13:28 UTC 2019 I: diffoscope 115 will be used to compare the two builds: Thu Jun 27 13:13:29 UTC 2019 E: gatb-core failed to build reproducibly in buster on i386. Thu Jun 27 13:13:31 UTC 2019 I: Submitting .buildinfo files to external archives: Thu Jun 27 13:13:31 UTC 2019 I: Submitting 12K b1/gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.buildinfo.asc Thu Jun 27 13:13:49 UTC 2019 I: Submitting 12K b2/gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.buildinfo.asc Thu Jun 27 13:13:54 UTC 2019 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Jun 27 13:13:54 UTC 2019 I: Done submitting .buildinfo files. Thu Jun 27 13:13:54 UTC 2019 I: Removing signed gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.buildinfo.asc files: removed './b1/gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.buildinfo.asc' removed './b2/gatb-core_1.4.1+git20181225.44d5a44+dfsg-3_i386.buildinfo.asc'