From nobody Tue Jun 27 00:34:58 2023 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 4Qqm2C0w4jz4k3Yl for ; Tue, 27 Jun 2023 00:34:59 +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 "R3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4Qqm2B68P3z4QDM for ; Tue, 27 Jun 2023 00:34:58 +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=1687826098; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc; bh=TR+xCS2I0w+uh7GmrLixAAyAIZAIGJevM5ztG6nJzHg=; b=IadSx4M7YBdSnEI/e7D7MJ59EBmrDb3Cz7r2Gbse1sBojbslf+dGbGFYk4uT2qPKirZXYa 2pyCRrxz6WduQQPEHpkfDOcT/Qp6ZUzFscps4c4OQgiP1OfIc42w9LSM6BzR8Br7k+6Q3F Yfrud9zMyaS2JYyk4ZjTqw9hrjy05n2xN4XAmmxhZajSpz+svloV6VSmG6XH3YNDALQ4nr e7Lbrt0gg2v+3je1Xj4vxDUPaPxtSIe6MrZFyx12ThxbA0LMGvfMdOr5fmH1oHNeSadlTN iV4s76JQ8++u/r61q9bhXopoxjqIFgZuSQsWVBgDefSsjhxwawBXwbYI0C0uEA== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1687826098; a=rsa-sha256; cv=none; b=sIv/BUyQaeByu0xEhix5jhtn1GFpFvkC/q1WGueHDzm+BqyZy6tJL7pO/Cwc13BhYtT/Wh 1o4FGyXDYEFUhoeoSX6rfagtRh1MDh4uecq7XU7B9gJxrG/Tcx564Mz0m+Zcj7dkqAFVSy WlImxuBsNYEwnHAKITTegp6SfP4Pu8FN8qfP395koT3DbP0s7+RpXa65RF8CZShGk7CqrC rS66DwzuJWGgMk4CwslYcHFLDZ6uItadAlcsSigcgotxOripylJVHK3jSbiDX/5ETXpIlh UM+ubLxJ8RtVjHxX+2Eo0o95cmXz3LIIG3d2m2K3oWgBVNvIJz8KQ798H2L5/Q== 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 4Qqm2B5FQ4zWy2 for ; Tue, 27 Jun 2023 00:34:58 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id 25a0 by beefy18.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on beefy18.nyi.freebsd.org); Tue, 27 Jun 2023 00:34:58 +0000 To: pkg-fallout@FreeBSD.org Subject: [package - main-amd64-default][biology/wise] Failed for wise-2.4.1_1 in build Date: Tue, 27 Jun 2023 00:34:58 +0000 Message-Id: <649a2eb2.25a0.24111125@beefy18.nyi.freebsd.org> From: X-ThisMailContainsUnwantedMimeParts: N 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: ports@FreeBSD.org Log URL: https://pkg-status.freebsd.org/beefy18/data/main-amd64-default/p4785b313b958_se8efee297c/logs/wise-2.4.1_1.log Build URL: https://pkg-status.freebsd.org/beefy18/build.html?mastername=main-amd64-default&build=p4785b313b958_se8efee297c Log: =>> Building biology/wise build started at Tue Jun 27 00:34:01 UTC 2023 port directory: /usr/ports/biology/wise package name: wise-2.4.1_1 building for: FreeBSD main-amd64-default-job-03 14.0-CURRENT FreeBSD 14.0-CURRENT 1400091 amd64 maintained by: ports@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-23-ga7f8d188 Host OSVERSION: 1400089 Jail OSVERSION: 1400091 Job Id: 03 !!! Jail is newer than host. (Jail: 1400091, Host: 1400089) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh OSVERSION=1400091 UNAME_v=FreeBSD 14.0-CURRENT 1400091 UNAME_r=14.0-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 LOCALBASE=/usr/local USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-23-ga7f8d188 MASTERMNT=/usr/local/poudriere/data/.m/main-amd64-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/main-amd64-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=main-amd64-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/main-amd64-default/ref/.p SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= DEPENDS_ARGS= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ===> The following configuration options are available for wise-2.4.1_1: DOCS=on: Build and/or install documentation EXAMPLES=on: Build and/or install examples ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- ports@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PKG_CONFIG=pkgconf XDG_DATA_HOME=/wrkdirs/usr/ports/biology/wise/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/wise/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/wise/work/.cache HOME=/wrkdirs/usr/ports/biology/wise/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/wise/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/wise/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/wise/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/wise/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/wise/work/.cache HOME=/wrkdirs/usr/ports/biology/wise/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/wise/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/wise/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 LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="ins tall -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-- PORTDOCS="" PORTEXAMPLES="" GTK2_VERSION="2.10.0" GTK3_VERSION="3.0.0" GTK4_VERSION="4.0.0" OSREL=14.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/wise" EXAMPLESDIR="share/examples/wise" DATADIR="share/wise" WWWDIR="www/wise" ETCDIR="etc/wise" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/wise DOCSDIR=/usr/local/share/doc/wise EXAMPLESDIR=/usr/local/share/examples/wise WWWDIR=/usr/local/www/wise ETCDIR=/usr/local/etc/wise --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### /usr/local/etc/poudriere.d/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 2 jobs MAKE_JOBS_NUMBER=2 #### /usr/ports/Mk/Scripts/ports_env.sh #### _CCVERSION_921dbbb2=FreeBSD clang version 16.0.6 (https://github.com/llvm/llvm-project.git llvmorg-16.0.6-0-g7cbf1a259152) Target: x86_64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _ALTCCVERSION_921dbbb2=none _CXXINTERNAL_acaad9ca=FreeBSD clang version 16.0.6 (https://github.com/llvm/llvm-project.git llvmorg-16.0.6-0-g7cbf1a259152) Target: x86_64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--hash-style=both" "--enable-new-dtags" "-o" "a.out" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "/dev/null" "-lc++" "-lm" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "-lc" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "/usr/lib/crtend.o" "/usr/lib/crtn.o" CC_OUTPUT_921dbbb2_58173849=yes CC_OUTPUT_921dbbb2_9bdba57c=yes CC_OUTPUT_921dbbb2_6a4fe7f5=yes CC_OUTPUT_921dbbb2_6bcac02b=yes CC_OUTPUT_921dbbb2_67d20829=yes CC_OUTPUT_921dbbb2_bfa62e83=yes CC_OUTPUT_921dbbb2_f0b4d593=yes CC_OUTPUT_921dbbb2_308abb44=yes CC_OUTPUT_921dbbb2_f00456e5=yes CC_OUTPUT_921dbbb2_65ad290d=yes CC_OUTPUT_921dbbb2_f2776b26=yes CC_OUTPUT_921dbbb2_53255a77=yes CC_OUTPUT_921dbbb2_911cfe02=yes CC_OUTPUT_921dbbb2_b2657cc3=yes CC_OUTPUT_921dbbb2_380987f7=yes CC_OUTPUT_921dbbb2_160933ec=yes CC_OUTPUT_921dbbb2_fb62803b=yes CC_OUTPUT_921dbbb2_af59ad06=yes CC_OUTPUT_921dbbb2_a15f3fcf=yes _OBJC_CCVERSION_921dbbb2=FreeBSD clang version 16.0.6 (https://github.com/llvm/llvm-project.git llvmorg-16.0.6-0-g7cbf1a259152) Target: x86_64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _OBJC_ALTCCVERSION_921dbbb2=none ARCH=amd64 OPSYS=FreeBSD _OSRELEASE=14.0-CURRENT OSREL=14.0 OSVERSION=1400091 PYTHONBASE=/usr/local HAVE_COMPAT_IA32_KERN=YES CONFIGURE_MAX_CMD_LEN=524288 HAVE_PORTS_ENV=1 #### Misc Poudriere #### 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) 1024 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 --End resource limits-- =================================================== ===> NOTICE: The wise port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing ===> License BSD3CLAUSE GPLv2 accepted by the user =========================================================================== =================================================== ===> wise-2.4.1_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.19.1_1.pkg [main-amd64-default-job-03] Installing pkg-1.19.1_1... [main-amd64-default-job-03] Extracting pkg-1.19.1_1: .......... done ===> wise-2.4.1_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of wise-2.4.1_1 =========================================================================== =================================================== =========================================================================== =================================================== ===> NOTICE: The wise port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../socket -I../dynlibsrc -I../dnaindex net_hspscan.c --- client_multihspscan.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../socket -I../dynlibsrc -I../dnaindex client_multihspscan.c client_multihspscan.dy:128:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ --- scanwise_server --- cc -o scanwise_server wise_proteinindex_server.o net_hspscan.o ../dnaindex/compressed_protein_index.o ../dnaindex/kmer_index_interface.o ../dnaindex/singleseqspace.o ../dnaindex/kmer_direct.o -ldyna_glib -ldyna -lwisesocket -lwisebase -L../base/ -L../socket -L../dynlibsrc -L../dnaindex -lm `pkg-config glib-2.0 --libs` -pthread --- client_multihspscan.o --- 1 warning generated. (cd models ; /usr/bin/make CC="cc" CFLAGS="-O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c `pkg-config glib-2.0 --cflags`" EXTRALIBS="-lm" HMMER_DEFINE="HMMER_INTERNAL" HMMER_INCLUDE="../HMMer2/" HMMER_LIBS="../HMMer2/" all ) --- dnal.o --- --- psw.o --- --- dnal.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ dnal.c --- psw.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ psw.c --- pswdb.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ pswdb.c --- dbac.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ dbac.c dbac.c:413:45: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat] fprintf(stderr,"Got %d with %d vs %d\n",i,strlen(seq),one->len); ~~ ^~~~~~~~~~~ %lu --- estwise.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include estwise.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ -I. --- dbac.o --- 1 warning generated. --- genewise.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include genewise.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ -I. --- genewisedb.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include genewisedb.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ --- estwisedb.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include estwisedb.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ --- genomewise.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genomewise.c --- sywise.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ sywise.c --- pseudowise.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ pseudowise.c --- promoterwise.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ `pkg-config glib-2.0 --cflags` promoterwise.c --- scanwisep_wiseserver.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ -o scanwisep_wiseserver.o -DSCAN_WISESERVER -I../network -I../socket -I../external/mott scanwisep.c --- dnaalign.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ dnaalign.c --- seqaligndisplay.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ seqaligndisplay.c --- proteinsw.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ proteinsw.c --- sw_wrap.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ sw_wrap.c --- abc.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ abc.c --- pba.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ pba.c --- dba.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ dba.c --- slimdba.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ slimdba.c --- bigdba.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ bigdba.c --- dbadisplay.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ dbadisplay.c --- geneparser21.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ geneparser21.c --- geneparameter.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ geneparameter.c --- genestats.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genestats.c --- genewisehsp.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genewisehsp.c --- geneutil.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ geneutil.c --- geneoutput.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ geneoutput.c --- threestatemodel.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ threestatemodel.c --- genefrequency.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genefrequency.c --- splicesitemodeler.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ splicesitemodeler.c --- genewise4.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genewise4.c --- genewise6.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genewise6.c --- genestretch6.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genestretch6.c --- genewise21.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genewise21.c --- geneloop21.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ geneloop21.c --- geneloop6.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ geneloop6.c --- genephase6.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genephase6.c genephase6.c:873:1: warning: non-void function does not return a value [-Wreturn-type] } ^ --- gwlite.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ gwlite.c --- gwlitemodel.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ gwlitemodel.c --- gwrap.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ gwrap.c --- matchsum.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ matchsum.c --- genephase6.o --- 1 warning generated. --- estwrap.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ estwrap.c --- genewisemodel.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genewisemodel.c --- phasemodel.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ phasemodel.c --- cdparser.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ cdparser.c --- genedisplay.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genedisplay.c --- estwise3.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ estwise3.c --- genedisplay.o --- genedisplay.dy:493:37: warning: data argument not used by format string [-Wformat-extra-args] sprintf(buffer," Intron ??? ",in_number); ~~~~~~~~~~~~~~~~ ^ 1 warning generated. --- estslim3.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ estslim3.c --- estloop3.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ estloop3.c --- estfrag3.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ estfrag3.c --- estslimloop.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ estslimloop.c --- gwquickdb.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ gwquickdb.c gwquickdb.dy:46:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ gwquickdb.dy:65:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ 2 warnings generated. --- threestatedb.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ threestatedb.c --- pfamhmmer1db.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ pfamhmmer1db.c --- pwmdna.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ pwmdna.c --- wise2xhmmer2.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../HMMer2/ -DHMMER_INTERNAL -I../base/ -I../dynlibsrc/ wise2xhmmer2.c --- genewisemodeldb.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genewisemodeldb.c --- seqhit.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ seqhit.c --- standardout.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ standardout.c --- geneparser4.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ geneparser4.c --- estquick3.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ estquick3.c --- genomewise9.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genomewise9.c genomewise9.c:745:1: warning: non-void function does not return a value [-Wreturn-type] } ^ --- genome_evidence.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ genome_evidence.c genome_evidence.dy:61:1: warning: non-void function does not return a value [-Wreturn-type] } ^ 1 warning generated. --- est_evidence.o --- cc -O2 -pipe -Wno-error=int-conversion -fstack-protector-strong -fno-strict-aliasing -c -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I../base/ -I../dynlibsrc/ est_evidence.c est_evidence.dy:142:16: error: incompatible function pointer types assigning to 'int (*)(void *)' from 'Wise2_EstEvidence *(Wise2_EstEvidence *)' (aka 'struct Wise2_EstEvidence *(struct Wise2_EstEvidence *)') [-Wincompatible-function-pointer-types] in->geu_free = free_EstEvidence; ^ ~~~~~~~~~~~~~~~~ 1 error generated. *** [est_evidence.o] Error code 1 make[2]: stopped in /wrkdirs/usr/ports/biology/wise/work/wise2.4.1/src/models --- genomewise9.o --- 1 warning generated. 1 error make[2]: stopped in /wrkdirs/usr/ports/biology/wise/work/wise2.4.1/src/models *** [realall] Error code 2 make[1]: stopped in /wrkdirs/usr/ports/biology/wise/work/wise2.4.1/src 1 error make[1]: stopped in /wrkdirs/usr/ports/biology/wise/work/wise2.4.1/src ===> 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 in /usr/ports/biology/wise