From nobody Fri Dec 24 06:32:58 2021 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 C95561916C50 for ; Fri, 24 Dec 2021 06:32:58 +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 4JKy1643Rpz4SKb for ; Fri, 24 Dec 2021 06:32:58 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy8.nyi.freebsd.org (beefy8.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:17]) (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 did not present a certificate) by mxrelay.nyi.freebsd.org (Postfix) with ESMTPS id 6AF381F60B for ; Fri, 24 Dec 2021 06:32:58 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy8.nyi.freebsd.org (localhost [127.0.0.1]) by beefy8.nyi.freebsd.org (8.16.1/8.16.1) with ESMTP id 1BO6WwH0091688 for ; Fri, 24 Dec 2021 06:32:58 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by beefy8.nyi.freebsd.org (8.16.1/8.16.1/Submit) id 1BO6WwBf091687; Fri, 24 Dec 2021 06:32:58 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Fri, 24 Dec 2021 06:32:58 GMT From: pkg-fallout@FreeBSD.org Message-Id: <202112240632.1BO6WwBf091687@beefy8.nyi.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [package - main-armv6-default][biology/phyml] Failed for phyml-3.3.20200621,1 in stage ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1640327578; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc; bh=JDzX4z8qrn1h3Yt02IhRbmFGLLbJVIyZtFhYXYr3U+U=; b=XkzvmWRNCEZdRRXZz9L2uJtC7szgDdzRgpLLAPZFW5GdXkQC2qtq32mO5aMJXFBcdxgeby OIYFrI2jl7nL0T8dg1BtqAnmWUpu6v8Oe6rJ13+hWyZCEfOB9jYuWsAcAbPElgfaCIteeJ ftBHXMbj0EE+ws8FkUJxBD5v3lvRkGIPwlscHnsAcPTua/G6azkJ+eu2H6s0v1EK2Thaqe TJhfFW3DxR1oNoZc77wBI1PkNBXX9t6h/11pnqf/VSm4YihoTjuaoVGrOAyuFEWQkfHiea nGPDp3/oq6d1UVmyV7h+FEEO6mQ7J5NiAqYKpyd/1IlmLhy1t+ugF9GtzsZY6g== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1640327578; a=rsa-sha256; cv=none; b=Xr1cC5CmIhKMMcKtdup8fw+CEK4Kz4oLUB9Sw9Kq1U2FRKzrfs/pwr5yaZcSkRqkkabuvl bGAIM6q2vTZBCKcynOgS5IaIygjecY/1KZNDgtJk2wRqlDTkGdEl3ENaKNlD6VP239hL4f pIwfniOJYNdXTcyeaB1r94m77jeNKgzIuHS/qevUy0xwdxB4oQHwxZEhzAxGsZN0+TW3rF ikofic5zeOEOWQLVrFiWxqorhjLPemvNBSspZiCdWcrfQ1cb+b+OOkproTgEUaIHhPbfHV gg5uw6wZtaia/hWoyt6S+5YLw46ooDstrM5Wv84LxiheXTHKuYOhpApb5KkVeg== ARC-Authentication-Results: i=1; mx1.freebsd.org; none 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: http://beefy8.nyi.freebsd.org/data/main-armv6-default/pb0c02f3a2961_s08d157a832/logs/phyml-3.3.20200621,1.log Build URL: http://beefy8.nyi.freebsd.org/build.html?mastername=main-armv6-default&build=pb0c02f3a2961_s08d157a832 Log: =>> Building biology/phyml build started at Fri Dec 24 06:30:08 UTC 2021 port directory: /usr/ports/biology/phyml package name: phyml-3.3.20200621,1 building for: FreeBSD main-armv6-default-job-12 14.0-CURRENT FreeBSD 14.0-CURRENT 1400045 arm maintained by: ports@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-21-g883afb07 Host OSVERSION: 1300121 Jail OSVERSION: 1400045 Job Id: 12 !!! Jail is newer than host. (Jail: 1400045, Host: 1300121) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh UNAME_p=armv6 UNAME_m=arm ABI_FILE=/usr/lib/crt1.o OSVERSION=1400045 UNAME_v=FreeBSD 14.0-CURRENT 1400045 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 QEMU_EMULATING=1 USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-21-g883afb07 MASTERMNT=/usr/local/poudriere/data/.m/main-armv6-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/main-armv6-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=main-armv6-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/main-armv6-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 phyml-3.3.20200621,1: DOCS=on: Build and/or install documentation EXAMPLES=on: Build and/or install examples ====> MPI (Message Passing Interface) support: you can only select none or one of them MPICH=off: Parallel processing support via MPICH 3 OPENMPI=off: Parallel processing support via Open MPI ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- ports@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --disable-beagle --disable-native --disable-mpi --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PKG_CONFIG=pkgconf XDG_DATA_HOME=/wrkdirs/usr/ports/biology/phyml/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/phyml/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/phyml/work/.cache HOME=/wrkdirs/usr/ports/biology/phyml/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/phyml/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_max_cmd_len=524288 --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/phyml/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/phyml/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/phyml/work/.cache HOME=/wrkdirs/usr/ports/biology/phyml/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/phyml/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="/nxb-bin/usr/bin/cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="/nxb-bin/usr/bin/cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="/nxb-bin/usr/bin/c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " MANPREFIX="/usr/local" 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-- PORTDOCS="" PORTEXAMPLES="" OSREL=14.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/phyml" EXAMPLESDIR="share/examples/phyml" DATADIR="share/phyml" WWWDIR="www/phyml" ETCDIR="etc/phyml" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/phyml DOCSDIR=/usr/local/share/doc/phyml EXAMPLESDIR=/usr/local/share/examples/phyml WWWDIR=/usr/local/www/phyml ETCDIR=/usr/local/etc/phyml --End SUB_LIST-- ---Begin make.conf--- .sinclude "/etc/make.nxb.conf" USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes MACHINE=arm MACHINE_ARCH=armv6 ARCH=${MACHINE_ARCH} #### /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_9d218390=FreeBSD clang version 13.0.0 (git@github.com:llvm/llvm-project.git llvmorg-13.0.0-0-gd7b669b3a303) Target: armv6-unknown-freebsd14.0-gnueabihf Thread model: posix InstalledDir: /nxb-bin/usr/bin _ALTCCVERSION_9d218390=none _CXXINTERNAL_9c45a5b1=FreeBSD clang version 13.0.0 (git@github.com:llvm/llvm-project.git llvmorg-13.0.0-0-gd7b669b3a303) Target: armv6-unknown-freebsd14.0-gnueabihf Thread model: posix InstalledDir: /nxb-bin/usr/bin "/nxb-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_9d218390_58173849=yes CC_OUTPUT_9d218390_9bdba57c=yes CC_OUTPUT_9d218390_6a4fe7f5=yes CC_OUTPUT_9d218390_6bcac02b=yes CC_OUTPUT_9d218390_67d20829=yes CC_OUTPUT_9d218390_bfa62e83=yes CC_OUTPUT_9d218390_f0b4d593=yes CC_OUTPUT_9d218390_308abb44=yes CC_OUTPUT_9d218390_f00456e5=yes CC_OUTPUT_9d218390_65ad290d=yes CC_OUTPUT_9d218390_f2776b26=yes CC_OUTPUT_9d218390_b2657cc3=yes CC_OUTPUT_9d218390_380987f7=yes CC_OUTPUT_9d218390_160933ec=yes CC_OUTPUT_9d218390_fb62803b=yes _OBJC_CCVERSION_9d218390=FreeBSD clang version 13.0.0 (git@github.com:llvm/llvm-project.git llvmorg-13.0.0-0-gd7b669b3a303) Target: armv6-unknown-freebsd14.0-gnueabihf Thread model: posix InstalledDir: /nxb-bin/usr/bin _OBJC_ALTCCVERSION_9d218390=none ARCH=armv6 OPSYS=FreeBSD _OSRELEASE=14.0-CURRENT OSREL=14.0 OSVERSION=1400045 PYTHONBASE=/usr/local CONFIGURE_MAX_CMD_LEN=524288 HAVE_PORTS_ENV=1 #### Misc Poudriere #### GID=0 UID=0 DISABLE_MAKE_JOBS=poudriere ---End make.conf--- ---Begin make.nxb.conf--- CC=/nxb-bin/usr/bin/cc CPP=/nxb-bin/usr/bin/cpp CXX=/nxb-bin/usr/bin/c++ NM=/nxb-bin/usr/bin/nm LD=/nxb-bin/usr/bin/ld OBJCOPY=/nxb-bin/usr/bin/objcopy SIZE=/nxb-bin/usr/bin/size STRIPBIN=/nxb-bin/usr/bin/strip SED=/nxb-bin/usr/bin/sed RANLIB=/nxb-bin/usr/bin/ranlib YACC=/nxb-bin/usr/bin/yacc MAKE=/nxb-bin/usr/bin/make STRINGS=/nxb-bin/usr/bin/strings AWK=/nxb-bin/usr/bin/awk FLEX=/nxb-bin/usr/bin/flex ---End make.nxb.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 phyml 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 checking for GNU libc compatible realloc... yes checking for vprintf... (cached) yes checking for _doprnt... no checking for floor... yes checking for pow... yes checking for rint... yes checking for sqrt... yes checking for strchr... (cached) yes checking for strstr... (cached) yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating doc/Makefile config.status: creating config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-beagle =========================================================================== =================================================== ===> Building for phyml-3.3.20200621,1 /nxb-bin/usr/bin/make all-recursive Making all in src /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.c mv -f .deps/main.Tpo .deps/main.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT utilities.o -MD -MP -MF .deps/utilities.Tpo -c -o utilities.o utilities.c utilities.c:6515:22: warning: variable 'sd' set but not used [-Wunused-but-set-variable] phydbl *delta,mean,sd,obs_stat,threshold; ^ utilities.c:8865:26: warning: result of comparison of constant -1 with expression of type 'char' is always true [-Wtautological-constant-out-of-range-compare] while((c != '(') && (c != EOF)); ~ ^ ~~~ utilities.c:8867:7: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c==EOF) ~^ ~~~ utilities.c:8879:11: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c==EOF) break; ~^ ~~~ utilities.c:8886:11: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c==EOF || c==';') break; ~^ ~~~ utilities.c:9167:12: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c == EOF) break; ~ ^ ~~~ 6 warnings generated. mv -f .deps/utilities.Tpo .deps/utilities.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT optimiz.o -MD -MP -MF .deps/optimiz.Tpo -c -o optimiz.o optimiz.c mv -f .deps/optimiz.Tpo .deps/optimiz.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT lk.o -MD -MP -MF .deps/lk.Tpo -c -o lk.o lk.c mv -f .deps/lk.Tpo .deps/lk.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT bionj.o -MD -MP -MF .deps/bionj.Tpo -c -o bionj.o bionj.c mv -f .deps/bionj.Tpo .deps/bionj.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT models.o -MD -MP -MF .deps/models.Tpo -c -o models.o models.c models.c:488:14: warning: variable 'mr' set but not used [-Wunused-but-set-variable] phydbl sum,mr; ^ models.c:1064:10: warning: variable 'sum_ev' set but not used [-Wunused-but-set-variable] phydbl sum_ev; ^ models.c:1063:10: warning: variable 'sum' set but not used [-Wunused-but-set-variable] phydbl sum; ^ models.c:1157:10: warning: variable 'sum' set but not used [-Wunused-but-set-variable] phydbl sum; ^ 4 warnings generated. mv -f .deps/models.Tpo .deps/models.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT free.o -MD -MP -MF .deps/free.Tpo -c -o free.o free.c mv -f .deps/free.Tpo .deps/free.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT help.o -MD -MP -MF .deps/help.Tpo -c -o help.o help.c mv -f .deps/help.Tpo .deps/help.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT simu.o -MD -MP -MF .deps/simu.Tpo -c -o simu.o simu.c simu.c:83:39: warning: variable 'n_tot_swap' set but not used [-Wunused-but-set-variable] int i,n_neg,n_tested,n_without_swap,n_tot_swap,step; ^ simu.c:82:19: warning: variable 'n_iter' set but not used [-Wunused-but-set-variable] phydbl old_pars,n_iter,lambda; ^ 2 warnings generated. mv -f .deps/simu.Tpo .deps/simu.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT eigen.o -MD -MP -MF .deps/eigen.Tpo -c -o eigen.o eigen.c mv -f .deps/eigen.Tpo .deps/eigen.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT pars.o -MD -MP -MF .deps/pars.Tpo -c -o pars.o pars.c mv -f .deps/pars.Tpo .deps/pars.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT alrt.o -MD -MP -MF .deps/alrt.Tpo -c -o alrt.o alrt.c mv -f .deps/alrt.Tpo .deps/alrt.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT interface.o -MD -MP -MF .deps/interface.Tpo -c -o interface.o interface.c mv -f .deps/interface.Tpo .deps/interface.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT cl.o -MD -MP -MF .deps/cl.Tpo -c -o cl.o cl.c mv -f .deps/cl.Tpo .deps/cl.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT spr.o -MD -MP -MF .deps/spr.Tpo -c -o spr.o spr.c spr.c:738:10: warning: variable 'mean_delta_lnL_spr' set but not used [-Wunused-but-set-variable] phydbl mean_delta_lnL_spr,max_delta_lnL_spr,tune_l_mult; ^ 1 warning generated. mv -f .deps/spr.Tpo .deps/spr.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT draw.o -MD -MP -MF .deps/draw.Tpo -c -o draw.o draw.c mv -f .deps/draw.Tpo .deps/draw.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT stats.o -MD -MP -MF .deps/stats.Tpo -c -o stats.o stats.c stats.c:3289:11: warning: variable 'det' set but not used [-Wunused-but-set-variable] phydbl det; ^ 1 warning generated. mv -f .deps/stats.Tpo .deps/stats.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT rates.o -MD -MP -MF .deps/rates.Tpo -c -o rates.o rates.c mv -f .deps/rates.Tpo .deps/rates.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT mcmc.o -MD -MP -MF .deps/mcmc.Tpo -c -o mcmc.o mcmc.c mv -f .deps/mcmc.Tpo .deps/mcmc.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT times.o -MD -MP -MF .deps/times.Tpo -c -o times.o times.c times.c:490:10: warning: variable 'sumdt' set but not used [-Wunused-but-set-variable] phydbl sumdt; ^ 1 warning generated. mv -f .deps/times.Tpo .deps/times.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT tiporder.o -MD -MP -MF .deps/tiporder.Tpo -c -o tiporder.o tiporder.c mv -f .deps/tiporder.Tpo .deps/tiporder.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT io.o -MD -MP -MF .deps/io.Tpo -c -o io.o io.c io.c:1167:12: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c == EOF) return 0; ~ ^ ~~~ io.c:1177:16: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c == EOF) return 0; ~ ^ ~~~ io.c:1182:12: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c == EOF) return 0; ~ ^ ~~~ io.c:1193:12: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c == EOF) return 0; ~ ^ ~~~ io.c:1214:16: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c == EOF) return 0; ~ ^ ~~~ io.c:1542:17: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] else if(c == EOF) ~ ^ ~~~ io.c:1571:8: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c == EOF) return 0; ~ ^ ~~~ io.c:1633:26: warning: result of comparison of constant -1 with expression of type 'char' is always true [-Wtautological-constant-out-of-range-compare] while((c != '(') && (c != EOF)); ~ ^ ~~~ io.c:1636:7: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c==EOF) return NULL; ~^ ~~~ io.c:1648:16: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c == EOF || c == ';') break; ~ ^ ~~~ io.c:1664:11: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if(c==EOF || c==';') break; ~^ ~~~ 11 warnings generated. mv -f .deps/io.Tpo .deps/io.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT make.o -MD -MP -MF .deps/make.Tpo -c -o make.o make.c mv -f .deps/make.Tpo .deps/make.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT nexus.o -MD -MP -MF .deps/nexus.Tpo -c -o nexus.o nexus.c mv -f .deps/nexus.Tpo .deps/nexus.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT init.o -MD -MP -MF .deps/init.Tpo -c -o init.o init.c mv -f .deps/init.Tpo .deps/init.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT xml.o -MD -MP -MF .deps/xml.Tpo -c -o xml.o xml.c mv -f .deps/xml.Tpo .deps/xml.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT date.o -MD -MP -MF .deps/date.Tpo -c -o date.o date.c mv -f .deps/date.Tpo .deps/date.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT sse.o -MD -MP -MF .deps/sse.Tpo -c -o sse.o sse.c mv -f .deps/sse.Tpo .deps/sse.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT avx.o -MD -MP -MF .deps/avx.Tpo -c -o avx.o avx.c mv -f .deps/avx.Tpo .deps/avx.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT tbe.o -MD -MP -MF .deps/tbe.Tpo -c -o tbe.o tbe.c mv -f .deps/tbe.Tpo .deps/tbe.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT ancestral.o -MD -MP -MF .deps/ancestral.Tpo -c -o ancestral.o ancestral.c mv -f .deps/ancestral.Tpo .deps/ancestral.Po /nxb-bin/usr/bin/cc -I. -I.. -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -MT mixt.o -MD -MP -MF .deps/mixt.Tpo -c -o mixt.o mixt.c mv -f .deps/mixt.Tpo .deps/mixt.Po /nxb-bin/usr/bin/cc -std=c99 -O3 -fomit-frame-pointer -funroll-loops -Wall -Winline -finline -o phyml main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o draw.o stats.o rates.o mcmc.o times.o tiporder.o io.o make.o nexus.o init.o xml.o date.o sse.o avx.o tbe.o ancestral.o mixt.o -lm -lm .: Building [phyml]. Version 3.3.20200621 :. Done. =========================================================================== =================================================== =========================================================================== =================================================== ===> Staging for phyml-3.3.20200621,1 ===> Generating temporary packing list Making install in src .: Building [phyml]. Version 3.3.20200621 :. Done. /bin/mkdir -p '/wrkdirs/usr/ports/biology/phyml/work/stage/usr/local/bin' install -s -m 555 phyml '/wrkdirs/usr/ports/biology/phyml/work/stage/usr/local/bin' (cd /wrkdirs/usr/ports/biology/phyml/work/phyml-3.3.20200621/doc && install -m 0644 *.pdf /wrkdirs/usr/ports/biology/phyml/work/stage/usr/local/share/doc/phyml) *** Error code 1 Stop. make: stopped in /usr/ports/biology/phyml