[package - 132amd64-quarterly][biology/libbigwig] Failed for libbigwig-0.4.7 in build
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Date: Thu, 04 Jan 2024 01:34:23 UTC
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: yuri@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/beefy14/data/132amd64-quarterly/294d1b3c41db/logs/libbigwig-0.4.7.log
Build URL: https://pkg-status.freebsd.org/beefy14/build.html?mastername=132amd64-quarterly&build=294d1b3c41db
Log:
=>> Building biology/libbigwig
build started at Thu Jan 4 01:34:13 UTC 2024
port directory: /usr/ports/biology/libbigwig
package name: libbigwig-0.4.7
building for: FreeBSD 132amd64-quarterly-job-04 13.2-RELEASE-p9 FreeBSD 13.2-RELEASE-p9 amd64
maintained by: yuri@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 751 Oct 3 01:01 /usr/ports/biology/libbigwig/Makefile
Ports top last git commit: 294d1b3c4
Ports top unclean checkout: no
Port dir last git commit: 2195304f9
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.0
Host OSVERSION: 1500006
Jail OSVERSION: 1302001
Job Id: 04
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---Begin OPTIONS List---
---End OPTIONS List---
--MAINTAINER--
yuri@FreeBSD.org
--End MAINTAINER--
--CONFIGURE_ARGS--
--End CONFIGURE_ARGS--
--CONFIGURE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/libbigwig/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/libbigwig/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/libbigwig/work/.cache HOME=/wrkdirs/usr/ports/biology/libbigwig/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/libbigwig/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/libbigwig/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CMAKE_PREFIX_PATH="/usr/local"
--End CONFIGURE_ENV--
--MAKE_ENV--
NINJA_STATUS="[%p %s/%t] " XDG_DATA_HOME=/wrkdirs/usr/ports/biology/libbigwig/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/libbigwig/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/libbigwig/work/.cache HOME=/wrkdirs/usr/ports/biology/libbigwig/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/libbigwig/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/libbigwig/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/libbigwig/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -fstack-protector-strong -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr
/local/include -fno-strict-aliasing -isystem /usr/local/include " 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--
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CMAKE_BUILD_TYPE="release" OSREL=13.2 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/libbigwig" EXAMPLESDIR="share/examples/libbigwig" DATADIR="share/libbigwig" WWWDIR="www/libbigwig" ETCDIR="etc/libbigwig"
--End PLIST_SUB--
--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/libbigwig DOCSDIR=/usr/local/share/doc/libbigwig EXAMPLESDIR=/usr/local/share/examples/libbigwig WWWDIR=/usr/local/www/libbigwig ETCDIR=/usr/local/etc/libbigwig
--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
#### ####
# 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
--End resource limits--
=======================<phase: check-sanity >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License MIT accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> libbigwig-0.4.7 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.20.9.pkg
[132amd64-quarterly-job-04] Installing pkg-1.20.9...
[132amd64-quarterly-job-04] Extracting pkg-1.20.9: .......... done
===> libbigwig-0.4.7 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of libbigwig-0.4.7
===========================================================================
=======================<phase: fetch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: fetch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License MIT accepted by the user
===> Fetching all distfiles required by libbigwig-0.4.7 for building
===========================================================================
=======================<phase: checksum >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License MIT accepted by the user
===> Fetching all distfiles required by libbigwig-0.4.7 for building
=> SHA256 Checksum OK for dpryan79-libBigWig-0.4.7_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: extract >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License MIT accepted by the user
===> Fetching all distfiles required by libbigwig-0.4.7 for building
===> Extracting for libbigwig-0.4.7
=> SHA256 Checksum OK for dpryan79-libBigWig-0.4.7_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: patch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Patching for libbigwig-0.4.7
===> Applying FreeBSD patches for libbigwig-0.4.7 from /usr/ports/biology/libbigwig/files
===========================================================================
=======================<phase: build-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> libbigwig-0.4.7 depends on file: /usr/local/bin/cmake - not found
===> Installing existing package /packages/All/cmake-core-3.26.1_3.pkg
[132amd64-quarterly-job-04] Installing cmake-core-3.26.1_3...
[132amd64-quarterly-job-04] `-- Installing expat-2.5.0...
[132amd64-quarterly-job-04] `-- Extracting expat-2.5.0: .......... done
[132amd64-quarterly-job-04] `-- Installing jsoncpp-1.9.5...
[132amd64-quarterly-job-04] `-- Extracting jsoncpp-1.9.5: .......... done
[132amd64-quarterly-job-04] `-- Installing libuv-1.46.0...
[132amd64-quarterly-job-04] `-- Extracting libuv-1.46.0: .......... done
[132amd64-quarterly-job-04] `-- Installing rhash-1.4.4...
[132amd64-quarterly-job-04] | `-- Installing gettext-runtime-0.22_1...
[132amd64-quarterly-job-04] | | `-- Installing indexinfo-0.3.1...
[132amd64-quarterly-job-04] | | `-- Extracting indexinfo-0.3.1: .... done
[132amd64-quarterly-job-04] | `-- Extracting gettext-runtime-0.22_1: .......... done
[132amd64-quarterly-job-04] `-- Extracting rhash-1.4.4: .......... done
[132amd64-quarterly-job-04] Extracting cmake-core-3.26.1_3: .......... done
===> libbigwig-0.4.7 depends on file: /usr/local/bin/cmake - found
===> Returning to build of libbigwig-0.4.7
===> libbigwig-0.4.7 depends on executable: ninja - not found
===> Installing existing package /packages/All/ninja-1.11.1,2.pkg
[132amd64-quarterly-job-04] Installing ninja-1.11.1,2...
[132amd64-quarterly-job-04] `-- Installing python39-3.9.18...
[132amd64-quarterly-job-04] | `-- Installing libffi-3.4.4...
[132amd64-quarterly-job-04] | `-- Extracting libffi-3.4.4: .......... done
[132amd64-quarterly-job-04] | `-- Installing mpdecimal-2.5.1...
[132amd64-quarterly-job-04] | `-- Extracting mpdecimal-2.5.1: .......... done
[132amd64-quarterly-job-04] | `-- Installing readline-8.2.1...
[132amd64-quarterly-job-04] | `-- Extracting readline-8.2.1: .......... done
[132amd64-quarterly-job-04] `-- Extracting python39-3.9.18: .......... done
[132amd64-quarterly-job-04] Extracting ninja-1.11.1,2: ........ done
=====
Message from python39-3.9.18:
--
Note that some standard Python modules are provided as separate ports
as they require additional dependencies. They are available as:
py39-gdbm databases/py-gdbm@py39
py39-sqlite3 databases/py-sqlite3@py39
py39-tkinter x11-toolkits/py-tkinter@py39
===> libbigwig-0.4.7 depends on executable: ninja - found
===> Returning to build of libbigwig-0.4.7
===========================================================================
=======================<phase: lib-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> libbigwig-0.4.7 depends on shared library: libcurl.so - not found
===> Installing existing package /packages/All/curl-8.5.0.pkg
[132amd64-quarterly-job-04] Installing curl-8.5.0...
[132amd64-quarterly-job-04] `-- Installing libnghttp2-1.57.0...
[132amd64-quarterly-job-04] `-- Extracting libnghttp2-1.57.0: .......... done
[132amd64-quarterly-job-04] `-- Installing libpsl-0.21.2_3...
[132amd64-quarterly-job-04] | `-- Installing libidn2-2.3.4...
[132amd64-quarterly-job-04] | | `-- Installing libunistring-1.1...
[132amd64-quarterly-job-04] | | `-- Extracting libunistring-1.1: .......... done
[132amd64-quarterly-job-04] | `-- Extracting libidn2-2.3.4: .......... done
[132amd64-quarterly-job-04] `-- Extracting libpsl-0.21.2_3: .......... done
[132amd64-quarterly-job-04] `-- Installing libssh2-1.11.0,3...
[132amd64-quarterly-job-04] `-- Extracting libssh2-1.11.0,3: .......... done
[132amd64-quarterly-job-04] Extracting curl-8.5.0: .......... done
===> libbigwig-0.4.7 depends on shared library: libcurl.so - found (/usr/local/lib/libcurl.so)
===> Returning to build of libbigwig-0.4.7
===========================================================================
=======================<phase: configure >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Configuring for libbigwig-0.4.7
===> Performing out-of-source build
/bin/mkdir -p /wrkdirs/usr/ports/biology/libbigwig/work/.build
-- The C compiler identification is Clang 14.0.5
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Found ZLIB: /usr/lib/libz.so (found version "1.2.13")
-- Found CURL: /usr/local/lib/libcurl.so (found version "8.5.0")
-- Configuring done (0.5s)
-- Generating done (0.0s)
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_COLOR_MAKEFILE
CMAKE_CXX_COMPILER
CMAKE_CXX_FLAGS
CMAKE_CXX_FLAGS_DEBUG
CMAKE_CXX_FLAGS_RELEASE
CMAKE_MODULE_LINKER_FLAGS
CMAKE_VERBOSE_MAKEFILE
FETCHCONTENT_FULLY_DISCONNECTED
THREADS_HAVE_PTHREAD_ARG
-- Build files have been written to: /wrkdirs/usr/ports/biology/libbigwig/work/.build
===========================================================================
=======================<phase: build >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Building for libbigwig-0.4.7
[ 16% 3/6] /usr/bin/cc -DBigWig_EXPORTS -I/wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7 -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wall -Wsign-compare -MD -MT CMakeFiles/BigWig.dir/bwValues.c.o -MF CMakeFiles/BigWig.dir/bwValues.c.o.d -o CMakeFiles/BigWig.dir/bwValues.c.o -c /wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7/bwValues.c
FAILED: CMakeFiles/BigWig.dir/bwValues.c.o
/usr/bin/cc -DBigWig_EXPORTS -I/wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7 -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wall -Wsign-compare -MD -MT CMakeFiles/BigWig.dir/bwValues.c.o -MF CMakeFiles/BigWig.dir/bwValues.c.o.d -o CMakeFiles/BigWig.dir/bwValues.c.o -c /wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7/bwValues.c
/wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7/bwValues.c:9:35: error: too few arguments provided to function-like macro invocation
static uint32_t roundup(uint32_t v) {
^
/usr/include/sys/param.h:309:9: note: macro 'roundup' defined here
#define roundup(x, y) ((((x)+((y)-1))/(y))*(y)) /* to any y */
^
/wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7/bwValues.c:9:24: error: expected ';' after top level declarator
static uint32_t roundup(uint32_t v) {
^
;
/wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7/bwValues.c:350:30: error: too few arguments provided to function-like macro invocation
o->m = roundup(o->l+1);
^
/usr/include/sys/param.h:309:9: note: macro 'roundup' defined here
#define roundup(x, y) ((((x)+((y)-1))/(y))*(y)) /* to any y */
^
/wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7/bwValues.c:370:30: error: too few arguments provided to function-like macro invocation
o->m = roundup(o->l+1);
^
/usr/include/sys/param.h:309:9: note: macro 'roundup' defined here
#define roundup(x, y) ((((x)+((y)-1))/(y))*(y)) /* to any y */
^
4 errors generated.
[ 33% 3/6] /usr/bin/cc -DBigWig_EXPORTS -I/wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7 -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wall -Wsign-compare -MD -MT CMakeFiles/BigWig.dir/bwRead.c.o -MF CMakeFiles/BigWig.dir/bwRead.c.o.d -o CMakeFiles/BigWig.dir/bwRead.c.o -c /wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7/bwRead.c
[ 50% 3/6] /usr/bin/cc -DBigWig_EXPORTS -I/wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7 -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wall -Wsign-compare -MD -MT CMakeFiles/BigWig.dir/bwStats.c.o -MF CMakeFiles/BigWig.dir/bwStats.c.o.d -o CMakeFiles/BigWig.dir/bwStats.c.o -c /wrkdirs/usr/ports/biology/libbigwig/work/libBigWig-0.4.7/bwStats.c
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 in /usr/ports/biology/libbigwig