Date: Sat, 11 Sep 2021 02:26:27 GMT From: pkg-fallout@FreeBSD.org To: pkg-fallout@FreeBSD.org Subject: [package - main-armv7-default][biology/paml] Failed for paml-4.9j in stage Message-ID: <202109110226.18B2QRVU077308@beefy12.nyi.freebsd.org>
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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: jrm@FreeBSD.org Log URL: http://beefy12.nyi.freebsd.org/data/main-armv7-default/pfda1da2d7917_s9939af1a16/logs/paml-4.9j.log Build URL: http://beefy12.nyi.freebsd.org/build.html?mastername=main-armv7-default&build=pfda1da2d7917_s9939af1a16 Log: =>> Building biology/paml build started at Sat Sep 11 02:06:49 UTC 2021 port directory: /usr/ports/biology/paml package name: paml-4.9j building for: FreeBSD main-armv7-default-job-12 14.0-CURRENT FreeBSD 14.0-CURRENT 1400032 arm maintained by: jrm@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-21-g883afb07 Host OSVERSION: 1400003 Jail OSVERSION: 1400032 Job Id: 12 !!! Jail is newer than host. (Jail: 1400032, Host: 1400003) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/csh UNAME_p=armv7 UNAME_m=arm ABI_FILE=/usr/lib/crt1.o OSVERSION=1400032 UNAME_v=FreeBSD 14.0-CURRENT 1400032 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-armv7-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/main-armv7-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=main-armv7-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/main-armv7-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 paml-4.9j: 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-- jrm@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/biology/paml/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/paml/work HOME=/wrkdirs/usr/ports/biology/paml/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/paml/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/paml/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/paml/work HOME=/wrkdirs/usr/ports/biology/paml/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/paml/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/paml" EXAMPLESDIR="share/examples/paml" DATADIR="share/paml" WWWDIR="www/paml" ETCDIR="etc/paml" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/paml DOCSDIR=/usr/local/share/doc/paml EXAMPLESDIR=/usr/local/share/examples/paml WWWDIR=/usr/local/www/paml ETCDIR=/usr/local/etc/paml --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=armv7 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 12.0.1 (git@github.com:llvm/llvm-project.git llvmorg-12.0.1-0-gfed41342a82f) Target: armv7-unknown-freebsd14.0-gnueabihf Thread model: posix InstalledDir: /nxb-bin/usr/bin _ALTCCVERSION_9d218390=none _CXXINTERNAL_9c45a5b1=FreeBSD clang version 12.0.1 (git@github.com:llvm/llvm-project.git llvmorg-12.0.1-0-gfed41342a82f) Target: armv7-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 12.0.1 (git@github.com:llvm/llvm-project.git llvmorg-12.0.1-0-gfed41342a82f) Target: armv7-unknown-freebsd14.0-gnueabihf Thread model: posix InstalledDir: /nxb-bin/usr/bin _OBJC_ALTCCVERSION_9d218390=none ARCH=armv7 OPSYS=FreeBSD _OSRELEASE=14.0-CURRENT OSREL=14.0 OSVERSION=1400032 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-- =======================<phase: check-sanity >============================ ===> License GPLv3 accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===> paml-4.9j depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.17.1.pkg [main-armv7-default-job-12] Installing pkg-1.17.1... [main-armv7-default-job-12] Extracting pkg-1.17.1: .......... done ===> paml-4.9j depends on file: /usr/local/sbin/pkg - found ===> Returning to build of paml-4.9j =========================================================================== =======================<phase: fetch-depends >============================ =========================================================================== =======================<phase: fetch >============================ ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by paml-4.9j for building <snip> int sprintf(char * __restrict, const char * __restrict, ...); ^ evolver.c:186:54: warning: passing 'unsigned char *' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] for (i = 0; i < com.ns; i++) sprintf(com.spname[i], "S%d", i + 1); ^~~~~~~~~~~~~ /usr/include/stdio.h:286:31: note: passing argument to parameter here int sprintf(char * __restrict, const char * __restrict, ...); ^ evolver.c:299:26: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] if ((p = strstr(com.spname[i], key)) ^~~~~~~~~~~~~ /usr/include/string.h:129:26: note: passing argument to parameter here char *strstr(const char *, const char *) __pure; ^ evolver.c:634:18: warning: passing 'unsigned char [512]' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] fdaa = gfopen(com.daafile, "r"); ^~~~~~~~~~~ ./paml.h:209:20: note: passing argument to parameter 'filename' here FILE *gfopen(char *filename, char *mode); ^ evolver.c:670:19: warning: initializing 'unsigned char *' with an expression of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] unsigned char *pch = (com.seqtype == 2 ? AAs : BASEs); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:672:34: warning: passing 'unsigned char [12]' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] FILE *frootseq = (FILE*)fopen(rootseqf, "r"); ^~~~~~~~ /usr/include/stdio.h:259:36: note: passing argument to parameter here FILE *fopen(const char * __restrict, const char * __restrict); ^ evolver.c:827:15: warning: passing 'unsigned char *' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] sprintf(com.spname[i], "S%d", i + 1); ^~~~~~~~~~~~~ /usr/include/stdio.h:286:31: note: passing argument to parameter here int sprintf(char * __restrict, const char * __restrict, ...); ^ evolver.c:1062:15: warning: passing 'unsigned char *' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] MakeSeq(com.z[tree.root], com.ls); ^~~~~~~~~~~~~~~~ evolver.c:662:19: note: passing argument to parameter 'z' here void MakeSeq(char*z, int ls) ^ 23 warnings generated. In file included from evolver.c:66: ./treesub.c:86:7: warning: assigning to 'unsigned char *' from 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] zt = (char*)malloc(com.ls*lpatt * sizeof(char)); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./treesub.c:105:24: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] k = strcmp(zt + h*lpatt, zt + p2s[ip] * lpatt); ^~~~~~~~~~~~ /usr/include/string.h:85:25: note: passing argument to parameter here int strcmp(const char *, const char *) __pure; ^ In file included from evolver.c:66: ./treesub.c:105:38: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] k = strcmp(zt + h*lpatt, zt + p2s[ip] * lpatt); ^~~~~~~~~~~~~~~~~~~~ /usr/include/string.h:85:39: note: passing argument to parameter here int strcmp(const char *, const char *) __pure; ^ In file included from evolver.c:66: ./treesub.c:143:21: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] k = strcmp(zt + h*lpatt, zt + p2s[ip] * lpatt); ^~~~~~~~~~~~ /usr/include/string.h:85:25: note: passing argument to parameter here int strcmp(const char *, const char *) __pure; ^ In file included from evolver.c:66: ./treesub.c:143:35: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] k = strcmp(zt + h*lpatt, zt + p2s[ip] * lpatt); ^~~~~~~~~~~~~~~~~~~~ /usr/include/string.h:85:39: note: passing argument to parameter here int strcmp(const char *, const char *) __pure; ^ In file included from evolver.c:66: ./treesub.c:256:7: warning: assigning to 'unsigned char *' from 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] zt = (char*)malloc(npatt0*lpatt * sizeof(char)); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./treesub.c:280:24: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] k = strcmp(zt + h*lpatt, zt + p2s[ip] * lpatt); ^~~~~~~~~~~~ /usr/include/string.h:85:25: note: passing argument to parameter here int strcmp(const char *, const char *) __pure; ^ In file included from evolver.c:66: ./treesub.c:280:38: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] k = strcmp(zt + h*lpatt, zt + p2s[ip] * lpatt); ^~~~~~~~~~~~~~~~~~~~ /usr/include/string.h:85:39: note: passing argument to parameter here int strcmp(const char *, const char *) __pure; ^ In file included from evolver.c:66: ./treesub.c:313:21: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] k = strcmp(zt + h*lpatt, zt + p2s[ip] * lpatt); ^~~~~~~~~~~~ /usr/include/string.h:85:25: note: passing argument to parameter here int strcmp(const char *, const char *) __pure; ^ In file included from evolver.c:66: ./treesub.c:313:35: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] k = strcmp(zt + h*lpatt, zt + p2s[ip] * lpatt); ^~~~~~~~~~~~~~~~~~~~ /usr/include/string.h:85:39: note: passing argument to parameter here int strcmp(const char *, const char *) __pure; ^ In file included from evolver.c:66: ./treesub.c:2973:19: warning: result of comparison of constant -1 with expression of type 'char' is always false [-Wtautological-constant-out-of-range-compare] if (line[i] == EOF) ~~~~~~~ ^ ~~~ ./treesub.c:3106:37: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] if (!strcmp(line, com.spname[i])) break; ^~~~~~~~~~~~~ /usr/include/string.h:85:39: note: passing argument to parameter here int strcmp(const char *, const char *) __pure; ^ In file included from evolver.c:66: ./treesub.c:3115:23: warning: passing 'unsigned char *' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] strcpy(com.spname[cnode = tip++], line); ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/string.h:87:31: note: passing argument to parameter here char *strcpy(char * __restrict, const char * __restrict); ^ In file included from evolver.c:67: ./treespace.c:131:18: warning: passing 'unsigned char *' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] sprintf(com.spname[i], "%d", i+1); ^~~~~~~~~~~~~ /usr/include/stdio.h:286:31: note: passing argument to parameter here int sprintf(char * __restrict, const char * __restrict, ...); ^ evolver.c:121:21: warning: assigning to 'unsigned char *' from 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] com.spname[i] = (char*)malloc(LSPNAME * sizeof(char*)); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:184:54: warning: passing 'unsigned char *' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] for (i = 0; i < com.ns; i++) sprintf(com.spname[i], "%c", (i < 26 ? 'A' + i : 'a' + i - 26)); ^~~~~~~~~~~~~ /usr/include/stdio.h:286:31: note: passing argument to parameter here int sprintf(char * __restrict, const char * __restrict, ...); ^ evolver.c:186:54: warning: passing 'unsigned char *' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] for (i = 0; i < com.ns; i++) sprintf(com.spname[i], "S%d", i + 1); ^~~~~~~~~~~~~ /usr/include/stdio.h:286:31: note: passing argument to parameter here int sprintf(char * __restrict, const char * __restrict, ...); ^ evolver.c:299:26: warning: passing 'unsigned char *' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] if ((p = strstr(com.spname[i], key)) ^~~~~~~~~~~~~ /usr/include/string.h:129:26: note: passing argument to parameter here char *strstr(const char *, const char *) __pure; ^ evolver.c:634:18: warning: passing 'unsigned char [512]' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] fdaa = gfopen(com.daafile, "r"); ^~~~~~~~~~~ ./paml.h:209:20: note: passing argument to parameter 'filename' here FILE *gfopen(char *filename, char *mode); ^ evolver.c:670:19: warning: initializing 'unsigned char *' with an expression of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] unsigned char *pch = (com.seqtype == 2 ? AAs : BASEs); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:672:34: warning: passing 'unsigned char [12]' to parameter of type 'const char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] FILE *frootseq = (FILE*)fopen(rootseqf, "r"); ^~~~~~~~ /usr/include/stdio.h:259:36: note: passing argument to parameter here FILE *fopen(const char * __restrict, const char * __restrict); ^ evolver.c:827:15: warning: passing 'unsigned char *' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] sprintf(com.spname[i], "S%d", i + 1); ^~~~~~~~~~~~~ /usr/include/stdio.h:286:31: note: passing argument to parameter here int sprintf(char * __restrict, const char * __restrict, ...); ^ evolver.c:1062:15: warning: passing 'unsigned char *' to parameter of type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign] MakeSeq(com.z[tree.root], com.ls); ^~~~~~~~~~~~~~~~ evolver.c:662:19: note: passing argument to parameter 'z' here void MakeSeq(char*z, int ls) ^ 23 warnings generated. =========================================================================== =======================<phase: run-depends >============================ =========================================================================== =======================<phase: stage >============================ ===> Staging for paml-4.9j ===> Generating temporary packing list install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/baseml /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/basemlg /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/chi2 /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/codeml /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/evolver /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/evolverNSbranches /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/evolverNSbranchsites /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/evolverNSsites /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/pamp /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -s -m 555 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/src/yn00 /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/bin install -m 0644 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/doc/* /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/share/doc/paml install -m 0644 /wrkdirs/usr/ports/biology/paml/work/paml4.9j/README.txt /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/share/doc/paml (cd /wrkdirs/usr/ports/biology/paml/work/paml4.9j && /bin/sh -c '(/usr/bin/find -Ed $1 $3 | /usr/bin/cpio -dumpl $2 >/dev/null 2>&1) && /usr/bin/find -Ed $1 $3 \( -type d -exec /bin/sh -c '\''cd '\''$2'\'' && chmod 755 "$@"'\'' . {} + -o -type f -exec /bin/sh -c '\''cd '\''$2'\'' && chmod 0644 "$@"'\'' . {} + \)' COPYTREE_SHARE "dat Technical" /wrkdirs/usr/ports/biology/paml/work/stage/usr/local/share/examples/paml) *** Error code 1 Stop. make: stopped in /usr/ports/biology/paml
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