From nobody Thu Feb 06 04:32:32 2025 X-Original-To: pkg-fallout@mlmmj.nyi.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mlmmj.nyi.freebsd.org (Postfix) with ESMTP id 4YpPN05SJ9z5n17L for ; Thu, 06 Feb 2025 04:32:32 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256 client-signature RSA-PSS (4096 bits) client-digest SHA256) (Client CN "mxrelay.nyi.freebsd.org", Issuer "R11" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4YpPN02Ykcz3Gwp for ; Thu, 06 Feb 2025 04:32:32 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1738816352; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:cc; bh=+uanqmLqbMOg7pylItA3h0Mf5hYnAexYU97MApGua84=; b=t3O0doZME+Ar2isKkYVByJIRsI3x7M/e3tp7SnlQ/h9xiWaRtHNy8oDU0nWXVIvMaUyWcb XRE+v9yPjPSvbAAY90f5RDYNXCHG5GNrYUX3OSLTStymhU8MWjBQx4IIN24cXZaUdxYiuw 1FWiVVVfxRMuFMaJrCHttzeyV98MLEIwvEyRwvMQOUTuPJTf2vLfQQGM2g/BKv41gfqml+ LbidzPPGiWlbv/soXVQRBiVTX7x4f61RCwGNQqu1Itupi/9OuTcQBmticK688tDEnRKlb0 +PEwAOI6iMVdVAFw8PQrNdpDMDqpHpWfM0OsmdgsuV+/Z2tFu2fRRqN/Sjpl8Q== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1738816352; a=rsa-sha256; cv=none; b=OG8DLuV2ze2Z83PU42vd6w/VLKs9CgOoTb/y67ONBO2MhivgvDeTzcU5+TEo2u7E2U47Oq iZOIQok63us7jqhMLLkx+dEfNBqzfZbuRDCV80T1M2YHgcoiNMqjTMZHi6O7cP3ZJy3bmP Y+Ju5J8rlzOEprtDeKzkXbdi2ivQlm41iNW3RBKBON0MONODzQ11CRklr7jHPGsTYlqGBU mTwcbW25MoU430ZvRV6KThTO35xPJ32HJtTzBrwxiFpAZ+VoJwtdyCeOw/2AN03eWUecWD k4b04K4QJSC2neQepn3bSY/3nuo3tbeSlrH4/BEffllm9BY6VgIzuyHR1YWtoA== ARC-Authentication-Results: i=1; mx1.freebsd.org; none Received: from beefy18.nyi.freebsd.org (beefy18.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:21]) by mxrelay.nyi.freebsd.org (Postfix) with ESMTP id 4YpPN027Ktz7Wy for ; Thu, 06 Feb 2025 04:32:32 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id 7c88 by beefy18.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on beefy18.nyi.freebsd.org); Thu, 06 Feb 2025 04:32:32 +0000 To: jwb@FreeBSD.org Subject: [package - main-amd64-default][biology/bifrost] Failed for bifrost-1.3.5 in build Cc: pkg-fallout@FreeBSD.org Date: Thu, 06 Feb 2025 04:32:32 +0000 Message-Id: <67a43b60.7c88.4815f96f@beefy18.nyi.freebsd.org> From: List-Id: Fallout logs from package building List-Archive: https://lists.freebsd.org/archives/freebsd-pkg-fallout List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-freebsd-pkg-fallout@FreeBSD.org You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: jwb@FreeBSD.org Log URL: https://pkg-status.freebsd.org/beefy18/data/main-amd64-default/p5beddb013d54_s078e8b34b13/logs/bifrost-1.3.5.log Build URL: https://pkg-status.freebsd.org/beefy18/build.html?mastername=main-amd64-default&build=p5beddb013d54_s078e8b34b13 Log: =>> Building biology/bifrost build started at Thu Feb 6 04:32:16 UTC 2025 port directory: /usr/ports/biology/bifrost package name: bifrost-1.3.5 building for: FreeBSD main-amd64-default-job-03 15.0-CURRENT FreeBSD 15.0-CURRENT 1500031 amd64 maintained by: jwb@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 512 Mar 21 2024 /usr/ports/biology/bifrost/Makefile Ports top last git commit: 5beddb013d5 Ports top unclean checkout: no Port dir last git commit: 719334cd852 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500028 Jail OSVERSION: 1500031 Job Id: 03 !!! Jail is newer than host. (Jail: 1500031, Host: 1500028) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh OSVERSION=1500031 UNAME_v=FreeBSD 15.0-CURRENT 1500031 UNAME_r=15.0-CURRENT BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin MAKE_OBJDIR_CHECK_WRITABLE=0 LOCALBASE=/usr/local USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.2 MASTERMNT=/usr/local/poudriere/data/.m/main-amd64-default/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 PWD=/usr/local/poudriere/data/.m/main-amd64-default/03/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=main-amd64-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/main-amd64-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.2 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- jwb@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/bifrost/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/bifrost/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/bifrost/work/.cache HOME=/wrkdirs/usr/ports/biology/bifrost/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/bifrost/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/bifrost/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- NINJA_STATUS="[%p %s/%t] " XDG_DATA_HOME=/wrkdirs/usr/ports/biology/bifrost/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/bifrost/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/bifrost/work/.cache HOME=/wrkdirs/usr/ports/biology/bifrost/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/bifrost/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/bifrost/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES DESTDIR=/wrkdirs/usr/ports/biology/bifrost/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- CMAKE_BUILD_TYPE="release" OSREL=15.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/bifrost" EXAMPLESDIR="share/examples/bifrost" DATADIR="share/bifrost" WWWDIR="www/bifrost" ETCDIR="etc/bifrost" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/bifrost DOCSDIR=/usr/local/share/doc/bifrost EXAMPLESDIR=/usr/local/share/examples/bifrost WWWDIR=/usr/local/www/bifrost ETCDIR=/usr/local/etc/bifrost --End SUB_LIST-- ---Begin make.conf--- # XXX: We really need this but cannot use it while 'make checksum' does not # try the next mirror on checksum failure. It currently retries the same # failed mirror and then fails rather then trying another. It *does* # try the next if the size is mismatched though. #MASTER_SITE_FREEBSD=yes # Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs MAKE_JOBS_NUMBER=3 USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### #### # XXX: We really need this but cannot use it while 'make checksum' does not # try the next mirror on checksum failure. It currently retries the same # failed mirror and then fails rather then trying another. It *does* # try the next if the size is mismatched though. #MASTER_SITE_FREEBSD=yes # Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs MAKE_JOBS_NUMBER=3 #### Misc Poudriere #### .include "/etc/make.conf.ports_env" GID=0 UID=0 ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 33554432 stack size (kbytes, -s) 524288 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 8192 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited socket buffer size (bytes, -b) unlimited pseudo-terminals (-p) unlimited kqueues (-k) unlimited umtx shared locks (-o) unlimited pipebuf (-y) unlimited --End resource limits-- =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD2CLAUSE accepted by the user =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> bifrost-1.3.5 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.0.5.pkg [main-amd64-default-job-03] Installing pkg-2.0.5... [main-amd64-default-job-03] Extracting pkg-2.0.5: .......... done ===> bifrost-1.3.5 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of bifrost-1.3.5 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by bifrost-1.3.5 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by bifrost-1.3.5 for building => SHA256 Checksum OK for pmelsted-bifrost-v1.3.5_GH0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by bifrost-1.3.5 for building ===> Extracting for bifrost-1.3.5 => SHA256 Checksum OK for pmelsted-bifrost-v1.3.5_GH0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for bifrost-1.3.5 ===> Applying FreeBSD patches for bifrost-1.3.5 from /usr/ports/biology/bifrost/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> bifrost-1.3.5 depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-core-3.31.5.pkg [main-amd64-default-job-03] Installing cmake-core-3.31.5... [main-amd64-default-job-03] `-- Installing expat-2.6.4... [main-amd64-default-job-03] `-- Extracting expat-2.6.4: .......... done [main-amd64-default-job-03] `-- Installing jsoncpp-1.9.6_1... [main-amd64-default-job-03] `-- Extracting jsoncpp-1.9.6_1: .......... done [main-amd64-default-job-03] `-- Installing libidn2-2.3.7... 640 | success = cdbg.build(opt); | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:1: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.hpp:900: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.tcc:3008:82: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 3008 | return pair, vector>(move(v_approx_cs), move(v_approx_km)); | ^ | std:: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:1: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.hpp:902: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:2008:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2008 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:324:34: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::readGraphFromIndexFASTA' requested here 324 | p_readSuccess_checksum = readGraphFromIndexFASTA(input_graph_fn, input_index_fn, k_, g_); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:167:13: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::read' requested here 167 | return read(input_graph_fn, input_index_fn, nb_threads, verbose); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:612:67: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::read' requested here 612 | invalid = !CompactedDBG, DataStorage>::read(input_graph_fn, nb_threads, verbose); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:654:80: note: in instantiation of member function 'ColoredCDBG<>::read' requested here 654 | if (lopt.filename_index_in.length() == 0) success = ccdbg1.read(lopt.filename_graph_in, lopt.filename_colors_in, lopt.nb_threads, lopt.verbose); | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:1: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.hpp:902: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:2008:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2008 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:2119:41: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2119 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:377:34: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::readGraphFromIndexGFA' requested here 377 | p_readSuccess_checksum = readGraphFromIndexGFA(input_graph_fn, input_index_fn, k_, g_); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:167:13: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::read' requested here 167 | return read(input_graph_fn, input_index_fn, nb_threads, verbose); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:612:67: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::read' requested here 612 | invalid = !CompactedDBG, DataStorage>::read(input_graph_fn, nb_threads, verbose); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:654:80: note: in instantiation of member function 'ColoredCDBG<>::read' requested here 654 | if (lopt.filename_index_in.length() == 0) success = ccdbg1.read(lopt.filename_graph_in, lopt.filename_colors_in, lopt.nb_threads, lopt.verbose); | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:1: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.hpp:902: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:2119:51: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2119 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:1274:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 1274 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:1198:12: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::readBinaryGraph' requested here 1198 | return readBinaryGraph(in); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:382:31: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::readBinaryGraph' requested here 382 | p_readSuccess_checksum = readBinaryGraph(input_graph_fn); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:167:13: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::read' requested here 167 | return read(input_graph_fn, input_index_fn, nb_threads, verbose); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:612:67: note: in instantiation of member function 'CompactedDBG, DataStorage<>>::read' requested here 612 | invalid = !CompactedDBG, DataStorage>::read(input_graph_fn, nb_threads, verbose); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:654:80: note: in instantiation of member function 'ColoredCDBG<>::read' requested here 654 | if (lopt.filename_index_in.length() == 0) success = ccdbg1.read(lopt.filename_graph_in, lopt.filename_colors_in, lopt.nb_threads, lopt.verbose); | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:1: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.hpp:902: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:1274:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 1274 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:2: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.hpp:516: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:505:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 505 | *uc = move(r_uc); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:481:81: note: while substituting into a lambda expression here 481 | auto join_function = [this](const vector>& unitig_tags) { | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:617:20: note: in instantiation of member function 'ColoredCDBG<>::loadColors' requested here 617 | invalid = !loadColors(input_graph_fn, input_colors_fn, nb_threads, verbose); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:654:80: note: in instantiation of member function 'ColoredCDBG<>::read' requested here 654 | if (lopt.filename_index_in.length() == 0) success = ccdbg1.read(lopt.filename_graph_in, lopt.filename_colors_in, lopt.nb_threads, lopt.verbose); | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:2: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.hpp:516: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:225:87: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 225 | const bool ret = CompactedDBG, DataStorage>::mergeData(move(o), nb_threads, verbose); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:675:60: note: in instantiation of member function 'ColoredCDBG<>::merge' requested here 675 | if (success) success = ccdbg_a.merge(move(ccdbg_b), lopt.nb_threads, lopt.verbose); | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:1: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.hpp:902: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:2008:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2008 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:324:34: note: in instantiation of member function 'CompactedDBG<>::readGraphFromIndexFASTA' requested here 324 | p_readSuccess_checksum = readGraphFromIndexFASTA(input_graph_fn, input_index_fn, k_, g_); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:687:42: note: in instantiation of member function 'CompactedDBG<>::read' requested here 687 | else success = cdbg1.read(lopt.filename_graph_in, lopt.filename_index_in, lopt.nb_threads, lopt.verbose); | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:1: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.hpp:902: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:2008:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2008 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:2119:41: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2119 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:377:34: note: in instantiation of member function 'CompactedDBG<>::readGraphFromIndexGFA' requested here 377 | p_readSuccess_checksum = readGraphFromIndexGFA(input_graph_fn, input_index_fn, k_, g_); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:687:42: note: in instantiation of member function 'CompactedDBG<>::read' requested here 687 | else success = cdbg1.read(lopt.filename_graph_in, lopt.filename_index_in, lopt.nb_threads, lopt.verbose); | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:1: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.hpp:902: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:2119:51: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2119 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:1274:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 1274 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:1198:12: note: in instantiation of member function 'CompactedDBG<>::readBinaryGraph' requested here 1198 | return readBinaryGraph(in); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:382:31: note: in instantiation of member function 'CompactedDBG<>::readBinaryGraph' requested here 382 | p_readSuccess_checksum = readBinaryGraph(input_graph_fn); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:687:42: note: in instantiation of member function 'CompactedDBG<>::read' requested here 687 | else success = cdbg1.read(lopt.filename_graph_in, lopt.filename_index_in, lopt.nb_threads, lopt.verbose); | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:1: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompactedDBG.hpp:902: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/IO.tcc:1274:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 1274 | unitig = new Unitig(move(cs), move(cc)); | ^ | std:: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:2: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.hpp:516: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:2783:62: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2783 | buffer_seq.push_back(move(s)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:2754:24: note: while substituting into a lambda expression here 2754 | [&]{ | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:1600:28: note: in instantiation of member function 'ColoredCDBG<>::search' requested here 1600 | const bool ret = this->search(query_filenames, out, found_km_ratio_out, inexact_search, files_as_queries, nb_threads, verbose); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:731:45: note: in instantiation of member function 'ColoredCDBG<>::search' requested here 731 | success = ccdbg.search( opt.filename_query_in, opt.prefixFilenameOut, opt.get_ratio_found_km, | ^ In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:2: In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.hpp:516: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:2155:62: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] 2155 | buffer_seq.push_back(move(s)); | ^ | std:: /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:2126:24: note: while substituting into a lambda expression here 2126 | [&]{ | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:1613:12: note: in instantiation of member function 'ColoredCDBG<>::searchMinRatioKmer_' requested here 1613 | return searchMinRatioKmer_( query_filenames, out, min_ratio_kmers, 0, | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/ColoredCDBG.tcc:1526:28: note: in instantiation of member function 'ColoredCDBG<>::searchMinRatioKmer' requested here 1526 | const bool ret = this->searchMinRatioKmer(query_filenames, out, min_ratio_kmers, inexact_search, files_as_queries, nb_threads, verbose); | ^ /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/Bifrost.cpp:736:45: note: in instantiation of member function 'ColoredCDBG<>::searchMinRatioKmer' requested here 736 | success = ccdbg.searchMinRatioKmer( opt.filename_query_in, opt.prefixFilenameOut, opt.min_ratio_kmers_search, | ^ 67 warnings and 1 error generated. [ 18% 7/32] /usr/bin/c++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -std=c++11 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -MD -MT src/CMakeFiles/bifrost_static.dir/CompressedSequence.cpp.o -MF src/CMakeFiles/bifrost_static.dir/CompressedSequence.cpp.o.d -o src/CMakeFiles/bifrost_static.dir/CompressedSequence.cpp.o -c /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/CompressedSequence.cpp [ 21% 7/32] /usr/bin/c++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -std=c++11 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -MD -MT src/CMakeFiles/bifrost_static.dir/FASTX_Parser.cpp.o -MF src/CMakeFiles/bifrost_static.dir/FASTX_Parser.cpp.o.d -o src/CMakeFiles/bifrost_static.dir/FASTX_Parser.cpp.o -c /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.3.5/src/FASTX_Parser.cpp ninja: build stopped: subcommand failed. ===> Compilation failed unexpectedly. Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to the maintainer. *** Error code 1 Stop. make: stopped making "build" in /usr/ports/biology/bifrost