[package - main-armv6-default][science/libcifpp] Failed for libcifpp-5.0.3 in build
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Date: Sun, 20 Nov 2022 10:33:22 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/beefy8/data/main-armv6-default/pf5ce9b7ee067_s183088934a/logs/libcifpp-5.0.3.log
Build URL: https://pkg-status.freebsd.org/beefy8/build.html?mastername=main-armv6-default&build=pf5ce9b7ee067_s183088934a
Log:
=>> Building science/libcifpp
build started at Sun Nov 20 10:32:24 UTC 2022
port directory: /usr/ports/science/libcifpp
package name: libcifpp-5.0.3
building for: FreeBSD main-armv6-default-job-08 14.0-CURRENT FreeBSD 14.0-CURRENT 1400073 arm
maintained by: yuri@FreeBSD.org
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=======================<phase: check-sanity >============================
===> License BSD2CLAUSE accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> libcifpp-5.0.3 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.18.4.pkg
[main-armv6-default-job-08] Installing pkg-1.18.4...
[main-armv6-default-job-08] Extracting pkg-1.18.4: .......... done
===> libcifpp-5.0.3 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of libcifpp-5.0.3
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License BSD2CLAUSE accepted by the user
=> components.cif.gz doesn't seem to exist in /portdistfiles/libcifpp-5.0.3.
=> Attempting to fetch ftp://ftp.wwpdb.org/pub/pdb/data/monomers/components.cif.gz
fetch: ftp://ftp.wwpdb.org/pub/pdb/data/monomers/components.cif.gz: size mismatch: expected 88204196, actual 88345745
=> Attempting to fetch http://distcache.FreeBSD.org/ports-distfiles/libcifpp-5.0.3/components.cif.gz
components.cif.gz 84 MB 90 MBps 01s
=> PDB-REDO-libcifpp-v5.0.3_GH0.tar.gz doesn't seem to exist in /portdistfiles/libcifpp-5.0.3.
=> Attempting to fetch https://codeload.github.com/PDB-REDO/libcifpp/tar.gz/v5.0.3?dummy=/PDB-REDO-libcifpp-v5.0.3_GH0.tar.gz
fetch: https://codeload.github.com/PDB-REDO/libcifpp/tar.gz/v5.0.3?dummy=/PDB-REDO-libcifpp-v5.0.3_GH0.tar.gz: size unknown
fetch: https://codeload.github.com/PDB-REDO/libcifpp/tar.gz/v5.0.3?dummy=/PDB-REDO-libcifpp-v5.0.3_GH0.tar.gz: size of remote file is not known
PDB-REDO-libcifpp-v5.0.3_GH0.tar.gz 1825 kB 5365 kBps 00s
===> Fetching all distfiles required by libcifpp-5.0.3 for building
<snip>
[main-armv6-default-job-08] | `-- Installing readline-8.1.2...
[main-armv6-default-job-08] | `-- Extracting readline-8.1.2: .......... done
[main-armv6-default-job-08] `-- Extracting python39-3.9.15_1: .......... done
[main-armv6-default-job-08] Extracting ninja-1.11.1,2: ........ done
=====
Message from python39-3.9.15_1:
--
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
===> libcifpp-5.0.3 depends on executable: ninja - found
===> Returning to build of libcifpp-5.0.3
===========================================================================
=======================<phase: lib-depends >============================
===> libcifpp-5.0.3 depends on shared library: libboost_iostreams.so - not found
===> Installing existing package /packages/All/boost-libs-1.80.0_1.pkg
[main-armv6-default-job-08] Installing boost-libs-1.80.0_1...
[main-armv6-default-job-08] `-- Installing icu-72.1,1...
[main-armv6-default-job-08] `-- Extracting icu-72.1,1: .......... done
[main-armv6-default-job-08] Extracting boost-libs-1.80.0_1: .......... done
=====
Message from boost-libs-1.80.0_1:
--
You have built the Boost library with thread support.
Don't forget to add -pthread to your linker options when
linking your code.
===> libcifpp-5.0.3 depends on shared library: libboost_iostreams.so - found (/usr/local/lib/libboost_iostreams.so)
===> Returning to build of libcifpp-5.0.3
===========================================================================
=======================<phase: configure >============================
===> Configuring for libcifpp-5.0.3
===> Performing out-of-source build
/bin/mkdir -p /wrkdirs/usr/ports/science/libcifpp/work/.build
-- The CXX compiler identification is Clang 14.0.5
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /nxb-bin/usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
Not trying to recreate symop_table_data.hpp since CCP4 is not defined
-- Performing Test GXX_LIBSTDCPP
-- Performing Test GXX_LIBSTDCPP - Failed
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE
-- Found ZLIB: /usr/lib/libz.so (found version "1.2.12")
-- Looking for C++ include filesystem
-- Looking for C++ include filesystem - found
-- Performing Test CXX_FILESYSTEM_NO_LINK_NEEDED
-- Performing Test CXX_FILESYSTEM_NO_LINK_NEEDED - Success
-- Looking for C++ include atomic
-- Looking for C++ include atomic - found
-- Performing Test _CXX_ATOMIC_BUILTIN
-- Performing Test _CXX_ATOMIC_BUILTIN - Success
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-- Configuring done
-- Generating done
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_COLOR_MAKEFILE
CMAKE_C_COMPILER
CMAKE_C_FLAGS
CMAKE_C_FLAGS_DEBUG
CMAKE_C_FLAGS_RELEASE
CMAKE_MODULE_LINKER_FLAGS
CMAKE_VERBOSE_MAKEFILE
FETCHCONTENT_FULLY_DISCONNECTED
-- Build files have been written to: /wrkdirs/usr/ports/science/libcifpp/work/.build
===========================================================================
=======================<phase: build >============================
===> Building for libcifpp-5.0.3
[ 4% 1/23] /nxb-bin/usr/bin/c++ -DCACHE_DIR=\"/usr/local/var/cache/libcifpp\" -DDATA_DIR=\"/usr/local/share/libcifpp\" -Dcifpp_EXPORTS -I/wrkdirs/usr/ports/science/libcifpp/work/libcifpp-5.0.3/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fPIC -pthread -std=gnu++20 -MD -MT CMakeFiles/cifpp.dir/src/category.cpp.o -MF CMakeFiles/cifpp.dir/src/category.cpp.o.d -o CMakeFiles/cifpp.dir/src/category.cpp.o -c /wrkdirs/usr/ports/science/libcifpp/work/libcifpp-5.0.3/src/category.cpp
FAILED: CMakeFiles/cifpp.dir/src/category.cpp.o
/nxb-bin/usr/bin/c++ -DCACHE_DIR=\"/usr/local/var/cache/libcifpp\" -DDATA_DIR=\"/usr/local/share/libcifpp\" -Dcifpp_EXPORTS -I/wrkdirs/usr/ports/science/libcifpp/work/libcifpp-5.0.3/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fPIC -pthread -std=gnu++20 -MD -MT CMakeFiles/cifpp.dir/src/category.cpp.o -MF CMakeFiles/cifpp.dir/src/category.cpp.o.d -o CMakeFiles/cifpp.dir/src/category.cpp.o -c /wrkdirs/usr/ports/science/libcifpp/work/libcifpp-5.0.3/src/category.cpp
In file included from /wrkdirs/usr/ports/science/libcifpp/work/libcifpp-5.0.3/src/category.cpp:30:
In file included from /wrkdirs/usr/ports/science/libcifpp/work/libcifpp-5.0.3/include/cif++/category.hpp:33:
In file included from /wrkdirs/usr/ports/science/libcifpp/work/libcifpp-5.0.3/include/cif++/condition.hpp:35:
In file included from /wrkdirs/usr/ports/science/libcifpp/work/libcifpp-5.0.3/include/cif++/row.hpp:29:
/wrkdirs/usr/ports/science/libcifpp/work/libcifpp-5.0.3/include/cif++/item.hpp:261:1: error: static_assert failed due to requirement 'sizeof(cif::item_value) == 16' "sizeof(item_value) should be 16 bytes"
static_assert(sizeof(item_value) == 16, "sizeof(item_value) should be 16 bytes");
^ ~~~~~~~~~~~~~~~~~~~~~~~~
1 error generated.
ninja: build stopped: subcommand failed.
*** Error code 1
Stop.
make: stopped in /usr/ports/science/libcifpp