-
Notifications
You must be signed in to change notification settings - Fork 3.3k
/
Copy pathbuild_failure.linux-64.yaml
106 lines (106 loc) · 7.67 KB
/
build_failure.linux-64.yaml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
recipe_sha: 284b65c3f737668433475ad2a25b5f21044babcbbe012767129f59dfce1fa436 # The hash of the recipe's meta.yaml at which this recipe failed to build.
skiplist: true # Set to true to skiplist this recipe so that it will be ignored as long as its latest commit is the one given above.
log: |-
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking how to run the C preprocessor... $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c -E
checking for ld used by $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c... $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-ld
checking if the linker ($BUILD_PREFIX/bin/x86_64-conda-linux-gnu-ld) is GNU ld... yes
checking whether the $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c linker ($BUILD_PREFIX/bin/x86_64-conda-linux-gnu-ld) supports shared libraries... yes
checking for $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c option to produce PIC... -fPIC -DPIC
checking if $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c PIC flag -fPIC -DPIC works... yes
checking if $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c static flag -static works... yes
checking if $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c supports -c -o file.o... yes
checking if $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c supports -c -o file.o... (cached) yes
checking whether the $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c linker ($BUILD_PREFIX/bin/x86_64-conda-linux-gnu-ld) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking for egrep... (cached) /usr/bin/grep -E
checking for Boost headers version >= 1.34.0... yes
checking for Boost's header version... 1_85
checking whether the compiler implements namespaces... yes
configure: WARNING: could not figure out which toolset name to use for /opt/conda/conda-bld/libmems_1717952897705/_build_env/bin/x86_64-conda-linux-gnu-c
checking for the toolset name used by Boost for $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c...
checking for boost/system/error_code.hpp... yes
checking for the Boost system library... yes
checking for boost/filesystem/path.hpp... yes
checking for the Boost filesystem library... (cached) yes
checking for boost/program_options.hpp... yes
checking for the Boost program_options library... (cached) yes
checking for boost/iostreams/device/file_descriptor.hpp... yes
checking for the Boost iostreams library... (cached) yes
checking for x86_64-conda-linux-gnu-pkg-config... no
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for DEPS... yes
checking for sys/types.h... (cached) yes
checking for sys/aio.h... no
checking for aio.h... yes
checking for features.h... yes
checking for pthread_mutex_unlock in -lpthread... yes
checking for aio_write in -lrt... yes
checking for x86_64-conda-linux-gnu-doxygen... no
checking for doxygen... no
configure: WARNING: doxygen not found - will not generate any doxygen documentation
checking for x86_64-conda-linux-gnu-perl... no
checking for perl... $BUILD_PREFIX/bin/perl
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking how to run the C preprocessor... $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-cpp
checking whether $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-cc needs -traditional... no
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating libMems/Makefile
config.status: creating libMems-1.6.pc
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
make all-recursive
make[1]: Entering directory '$SRC_DIR/trunk'
Making all in libMems
make[2]: Entering directory '$SRC_DIR/trunk/libMems'
/bin/sh ../libtool --tag=CXX --mode=compile $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c -DHAVE_CONFIG_H -I. -I.. -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem $PREFIX/include -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I$PREFIX/include/libGenome-1.3 -I$PREFIX/include/libMUSCLE-3.7 -fvisibility-inlines-hidden -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem $PREFIX/include -fdebug-prefix-map=$SRC_DIR=/usr/local/src/conda/libmems-1.6.0 -fdebug-prefix-map=$PREFIX=/usr/local/src/conda-prefix -MT RepeatHash.lo -MD -MP -MF .deps/RepeatHash.Tpo -c -o RepeatHash.lo RepeatHash.cpp
libtool: compile: $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c -DHAVE_CONFIG_H -I. -I.. -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem $PREFIX/include -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I$PREFIX/include/libGenome-1.3 -I$PREFIX/include/libMUSCLE-3.7 -fvisibility-inlines-hidden -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem $PREFIX/include -fdebug-prefix-map=$SRC_DIR=/usr/local/src/conda/libmems-1.6.0 -fdebug-prefix-map=$PREFIX=/usr/local/src/conda-prefix -MT RepeatHash.lo -MD -MP -MF .deps/RepeatHash.Tpo -c RepeatHash.cpp -fPIC -DPIC -o .libs/RepeatHash.o
In file included from ../libMems/MatchList.h:25,
from ../libMems/MatchFinder.h:18,
from ../libMems/MemHash.h:20,
from ../libMems/RepeatHash.h:16,
from RepeatHash.cpp:13:
../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)':
../libMems/Files.h:82:20: error: 'class boost::filesystem::path' has no member named 'branch_path'
82 | dir = path.branch_path().string();
| ^~~~~~~~~~~
../libMems/Files.h:86:21: error: 'class boost::filesystem::path' has no member named 'leaf'
86 | name = path.leaf().string();
| ^~~~
make[2]: *** [Makefile:790: RepeatHash.lo] Error 1
make[2]: Leaving directory '$SRC_DIR/trunk/libMems'
make[1]: *** [Makefile:549: all-recursive] Error 1
make[1]: Leaving directory '$SRC_DIR/trunk'
make: *** [Makefile:457: all] Error 2
Traceback (most recent call last):
File "/opt/conda/bin/conda-build", line 11, in <module>
sys.exit(execute())
File "/opt/conda/lib/python3.10/site-packages/conda_build/cli/main_build.py", line 590, in execute
api.build(
File "/opt/conda/lib/python3.10/site-packages/conda_build/api.py", line 250, in build
return build_tree(
File "/opt/conda/lib/python3.10/site-packages/conda_build/build.py", line 3638, in build_tree
packages_from_this = build(
File "/opt/conda/lib/python3.10/site-packages/conda_build/build.py", line 2506, in build
utils.check_call_env(
File "/opt/conda/lib/python3.10/site-packages/conda_build/utils.py", line 405, in check_call_env
return _func_defaulting_env_to_os_environ("call", *popenargs, **kwargs)
File "/opt/conda/lib/python3.10/site-packages/conda_build/utils.py", line 381, in _func_defaulting_env_to_os_environ
raise subprocess.CalledProcessError(proc.returncode, _args)
subprocess.CalledProcessError: Command '['/bin/bash', '-o', 'errexit', '/opt/conda/conda-bld/libmems_1717952897705/work/conda_build.sh']' returned non-zero exit status 2.
# Last 100 lines of the build log.
category: |-
compiler error