diff --git a/recipes/dicey/build.sh b/recipes/dicey/build.sh index 54987ee3ba11a..38a203670614e 100644 --- a/recipes/dicey/build.sh +++ b/recipes/dicey/build.sh @@ -1,5 +1,3 @@ -#!/bin/sh +#!/bin/bash -make all CXX=$CXX CXXFLAGS="-D__STDC_FORMAT_MACROS -I${SRC_DIR}/src/sdslLite/include -L${SRC_DIR}/src/sdslLite/lib -I${PREFIX}/include -L${PREFIX}/lib -Isrc/jlib/ -std=c++14" -mkdir -p $PREFIX/bin -cp src/dicey $PREFIX/bin +CXXFLAGS="${CXXFLAGS} -D__STDC_FORMAT_MACROS -I${SRC_DIR}/src/sdslLite/include -L${SRC_DIR}/src/sdslLite/lib -I${PREFIX}/include -L${PREFIX}/lib -Isrc/jlib/ -std=c++17" make -j${CPU_COUNT} CXX="${CXX}" prefix="${PREFIX}" install diff --git a/recipes/dicey/build_failure.linux-64.yaml b/recipes/dicey/build_failure.linux-64.yaml deleted file mode 100644 index 7a7c7fc2685d4..0000000000000 --- a/recipes/dicey/build_failure.linux-64.yaml +++ /dev/null @@ -1,104 +0,0 @@ -recipe_sha: c8389fa92d55fba29aa3e922321084ba770fc8c234a709c8b440b779fa5268d0 # The hash of the recipe's meta.yaml at which this recipe failed to build. -skiplist: true # Set to true to skiplist this recipe so that it will be ignored as long as its latest commit is the one given above. -log: |- - Sample programs can be found in the examples-directory. - A program 'example.cpp' can be compiled with the command: - g -std=c14 -D__STDC_FORMAT_MACROS -I$SRC_DIR/src/sdslLite/include -L$SRC_DIR/src/sdslLite/lib -I$PREFIX/include -L$PREFIX/lib -Isrc/jlib/ -std=c14 -O3 -DNDEBUG -msse4.2 -Wall -Wextra -pedantic -ffast-math -funroll-loops -D__extern_always_inline="extern __always_inline" \ - -I$SRC_DIR/src/sdslLite/include -L$SRC_DIR/src/sdslLite/lib \ - example.cpp -ldivsufsort -ldivsufsort64 - - Tests in the test-directory - A cheat sheet in the extras/cheatsheet-directory. - Have fun! - $BUILD_PREFIX/bin/x86_64-conda-linux-gnu-c -D__STDC_FORMAT_MACROS -I$SRC_DIR/src/sdslLite/include -L$SRC_DIR/src/sdslLite/lib -I$PREFIX/include -L$PREFIX/lib -Isrc/jlib/ -std=c14 src/dicey.cpp -o src/dicey -Wl,-O2 -Wl,--sort-common -Wl,--as-needed -Wl,-z,relro -Wl,-z,now -Wl,--disable-new-dtags -Wl,--gc-sections -Wl,--allow-shlib-undefined -Wl,-rpath,$PREFIX/lib -Wl,-rpath-link,$PREFIX/lib -L$PREFIX/lib -L$SRC_DIR/src/htslib/ -L$SRC_DIR/src/htslib//lib -L$SRC_DIR/src/sdslLite//lib -lboost_iostreams -lboost_filesystem -lboost_system -lboost_program_options -lboost_date_time -ldl -lpthread -lhts -lz -llzma -lbz2 -Wl,-rpath,$SRC_DIR/src/htslib/ - In file included from src/bed.h:6, - from src/dicey.cpp:12: - /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/progress.hpp:23:3: error: #error This header is deprecated and will be removed. (You can define BOOST_TIMER_ENABLE_DEPRECATED to suppress this error.) - 23 | # error This header is deprecated and will be removed. (You can define BOOST_TIMER_ENABLE_DEPRECATED to suppress this error.) - | ^~~~~ - In file included from /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/progress.hpp:29: - /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/timer.hpp:21:3: error: #error This header is deprecated and will be removed. (You can define BOOST_TIMER_ENABLE_DEPRECATED to suppress this error.) - 21 | # error This header is deprecated and will be removed. (You can define BOOST_TIMER_ENABLE_DEPRECATED to suppress this error.) - | ^~~~~ - In file included from /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, - from /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/smart_ptr/intrusive_ptr.hpp:16, - from /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/filesystem/exception.hpp:20, - from /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/filesystem.hpp:17, - from src/bed.h:4: - /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/config/pragma_message.hpp:24:34: note: '#pragma message: This header is deprecated. Use the facilities in or instead.' - 24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x))) - | ^~~~~~~ - /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/config/header_deprecated.hpp:23:37: note: in expansion of macro 'BOOST_PRAGMA_MESSAGE' - 23 | # define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.") - | ^~~~~~~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/progress.hpp:27:1: note: in expansion of macro 'BOOST_HEADER_DEPRECATED' - 27 | BOOST_HEADER_DEPRECATED( "the facilities in or " ) - | ^~~~~~~~~~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/config/pragma_message.hpp:24:34: note: '#pragma message: This header is deprecated. Use the facilities in instead.' - 24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x))) - | ^~~~~~~ - /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/config/header_deprecated.hpp:23:37: note: in expansion of macro 'BOOST_PRAGMA_MESSAGE' - 23 | # define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.") - | ^~~~~~~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718311588591/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/timer.hpp:25:1: note: in expansion of macro 'BOOST_HEADER_DEPRECATED' - 25 | BOOST_HEADER_DEPRECATED( "the facilities in " ) - | ^~~~~~~~~~~~~~~~~~~~~~~ - In file included from src/dicey.cpp:17: - src/hunter.h:65:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | struct SortDnaHit : public std::binary_function { - | ^~~~~~~~~~~~~~~ - In file included from /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/string:48, - from /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/bits/locale_classes.h:40, - from /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/bits/ios_base.h:41, - from /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/ios:42, - from /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/ostream:38, - from /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/iostream:39, - from src/dicey.cpp:3: - /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - In file included from src/dicey.cpp:18: - src/silica.h:80:37: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 80 | struct SortPrimer : public std::binary_function - | ^~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - src/silica.h:100:39: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 100 | struct SortProducts : public std::binary_function - | ^~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - In file included from src/padlock.h:34, - from src/dicey.cpp:21: - src/gtf.h:53:42: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 53 | struct SortIntervalLabel : public std::binary_function { - | ^~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - src/gtf.h:60:42: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 60 | struct SortIntervalStart : public std::binary_function { - | ^~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718311588591/_build_env/lib/gcc/x86_64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - make: *** [Makefile:60: src/dicey] Error 1 - Traceback (most recent call last): - File "/opt/conda/bin/conda-build", line 11, in - 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/dicey_1718311588591/work/conda_build.sh']' returned non-zero exit status 2. -# Last 100 lines of the build log. diff --git a/recipes/dicey/build_failure.linux-aarch64.yaml b/recipes/dicey/build_failure.linux-aarch64.yaml deleted file mode 100644 index c0c5be81f9cf2..0000000000000 --- a/recipes/dicey/build_failure.linux-aarch64.yaml +++ /dev/null @@ -1,104 +0,0 @@ -recipe_sha: c8389fa92d55fba29aa3e922321084ba770fc8c234a709c8b440b779fa5268d0 # 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: |- - Sample programs can be found in the examples-directory. - A program 'example.cpp' can be compiled with the command: - g -std=c14 -D__STDC_FORMAT_MACROS -I$SRC_DIR/src/sdslLite/include -L$SRC_DIR/src/sdslLite/lib -I$PREFIX/include -L$PREFIX/lib -Isrc/jlib/ -std=c14 -O3 -DNDEBUG -Wall -Wextra -pedantic -ffast-math -funroll-loops -D__extern_always_inline="extern __always_inline" \ - -I$SRC_DIR/src/sdslLite/include -L$SRC_DIR/src/sdslLite/lib \ - example.cpp -ldivsufsort -ldivsufsort64 - - Tests in the test-directory - A cheat sheet in the extras/cheatsheet-directory. - Have fun! - $BUILD_PREFIX/bin/aarch64-conda-linux-gnu-c -D__STDC_FORMAT_MACROS -I$SRC_DIR/src/sdslLite/include -L$SRC_DIR/src/sdslLite/lib -I$PREFIX/include -L$PREFIX/lib -Isrc/jlib/ -std=c14 src/dicey.cpp -o src/dicey -Wl,-O2 -Wl,--sort-common -Wl,--as-needed -Wl,-z,relro -Wl,-z,now -Wl,--allow-shlib-undefined -Wl,-rpath,$PREFIX/lib -Wl,-rpath-link,$PREFIX/lib -L$PREFIX/lib -L$SRC_DIR/src/htslib/ -L$SRC_DIR/src/htslib//lib -L$SRC_DIR/src/sdslLite//lib -lboost_iostreams -lboost_filesystem -lboost_system -lboost_program_options -lboost_date_time -ldl -lpthread -lhts -lz -llzma -lbz2 -Wl,-rpath,$SRC_DIR/src/htslib/ - In file included from src/bed.h:6, - from src/dicey.cpp:12: - /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/progress.hpp:23:3: error: #error This header is deprecated and will be removed. (You can define BOOST_TIMER_ENABLE_DEPRECATED to suppress this error.) - 23 | # error This header is deprecated and will be removed. (You can define BOOST_TIMER_ENABLE_DEPRECATED to suppress this error.) - | ^~~~~ - In file included from /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/progress.hpp:29: - /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/timer.hpp:21:3: error: #error This header is deprecated and will be removed. (You can define BOOST_TIMER_ENABLE_DEPRECATED to suppress this error.) - 21 | # error This header is deprecated and will be removed. (You can define BOOST_TIMER_ENABLE_DEPRECATED to suppress this error.) - | ^~~~~ - In file included from /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, - from /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/smart_ptr/intrusive_ptr.hpp:16, - from /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/filesystem/exception.hpp:20, - from /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/filesystem.hpp:17, - from src/bed.h:4: - /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/config/pragma_message.hpp:24:34: note: '#pragma message: This header is deprecated. Use the facilities in or instead.' - 24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x))) - | ^~~~~~~ - /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/config/header_deprecated.hpp:23:37: note: in expansion of macro 'BOOST_PRAGMA_MESSAGE' - 23 | # define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.") - | ^~~~~~~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/progress.hpp:27:1: note: in expansion of macro 'BOOST_HEADER_DEPRECATED' - 27 | BOOST_HEADER_DEPRECATED( "the facilities in or " ) - | ^~~~~~~~~~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/config/pragma_message.hpp:24:34: note: '#pragma message: This header is deprecated. Use the facilities in instead.' - 24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x))) - | ^~~~~~~ - /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/config/header_deprecated.hpp:23:37: note: in expansion of macro 'BOOST_PRAGMA_MESSAGE' - 23 | # define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.") - | ^~~~~~~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718314872467/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeho/include/boost/timer.hpp:25:1: note: in expansion of macro 'BOOST_HEADER_DEPRECATED' - 25 | BOOST_HEADER_DEPRECATED( "the facilities in " ) - | ^~~~~~~~~~~~~~~~~~~~~~~ - In file included from src/dicey.cpp:17: - src/hunter.h:65:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | struct SortDnaHit : public std::binary_function { - | ^~~~~~~~~~~~~~~ - In file included from /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/string:48, - from /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/bits/locale_classes.h:40, - from /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/bits/ios_base.h:41, - from /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/ios:42, - from /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/ostream:38, - from /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/iostream:39, - from src/dicey.cpp:3: - /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - In file included from src/dicey.cpp:18: - src/silica.h:80:37: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 80 | struct SortPrimer : public std::binary_function - | ^~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - src/silica.h:100:39: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 100 | struct SortProducts : public std::binary_function - | ^~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - In file included from src/padlock.h:34, - from src/dicey.cpp:21: - src/gtf.h:53:42: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 53 | struct SortIntervalLabel : public std::binary_function { - | ^~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - src/gtf.h:60:42: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 60 | struct SortIntervalStart : public std::binary_function { - | ^~~~~~~~~~~~~~~ - /opt/conda/conda-bld/dicey_1718314872467/_build_env/lib/gcc/aarch64-conda-linux-gnu/12.3.0/include/c/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ - make: *** [Makefile:60: src/dicey] Error 1 - Traceback (most recent call last): - File "/opt/conda/bin/conda-build", line 11, in - 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/dicey_1718314872467/work/conda_build.sh']' returned non-zero exit status 2. -# Last 100 lines of the build log. diff --git a/recipes/dicey/build_failure.osx-64.yaml b/recipes/dicey/build_failure.osx-64.yaml deleted file mode 100644 index bd4b827824d0d..0000000000000 --- a/recipes/dicey/build_failure.osx-64.yaml +++ /dev/null @@ -1,104 +0,0 @@ -recipe_sha: c8389fa92d55fba29aa3e922321084ba770fc8c234a709c8b440b779fa5268d0 # 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: |- - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [ 91%] Building CXX object tutorial/CMakeFiles/expl-20.dir/expl-20.cpp.o - [ 91%] Linking CXX executable expl-20 - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [ 91%] Built target expl-20 - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [ 91%] Building CXX object tutorial/CMakeFiles/expl-21.dir/expl-21.cpp.o - [ 91%] Linking CXX executable expl-21 - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [ 91%] Built target expl-21 - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [ 91%] Building CXX object tutorial/CMakeFiles/expl-22.dir/expl-22.cpp.o - [ 91%] Linking CXX executable expl-22 - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [ 91%] Built target expl-22 - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [ 91%] Building CXX object tutorial/CMakeFiles/expl-23.dir/expl-23.cpp.o - [ 91%] Linking CXX executable expl-23 - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [ 91%] Built target expl-23 - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [ 91%] Building CXX object tutorial/CMakeFiles/expl-24.dir/expl-24.cpp.o - [ 95%] Linking CXX executable expl-24 - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [ 95%] Built target expl-24 - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [ 95%] Building CXX object tutorial/CMakeFiles/expl-25.dir/expl-25.cpp.o - [ 95%] Linking CXX executable expl-25 - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [ 95%] Built target expl-25 - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [ 95%] Building CXX object tutorial/CMakeFiles/expl-26.dir/expl-26.cpp.o - [ 95%] Linking CXX executable expl-26 - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [ 95%] Built target expl-26 - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [100%] Building CXX object tutorial/CMakeFiles/int-vector-tutorial.dir/int-vector-tutorial.cpp.o - [100%] Linking CXX executable int-vector-tutorial - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [100%] Built target int-vector-tutorial - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [100%] Building CXX object tutorial/CMakeFiles/rmq-example.dir/rmq-example.cpp.o - [100%] Linking CXX executable rmq-example - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [100%] Built target rmq-example - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - make[3]: Entering directory '$SRC_DIR/src/xxsds/build' - [100%] Building CXX object tutorial/CMakeFiles/use-a-wavelet-tree.dir/use-a-wavelet-tree.cpp.o - [100%] Linking CXX executable use-a-wavelet-tree - make[3]: Leaving directory '$SRC_DIR/src/xxsds/build' - [100%] Built target use-a-wavelet-tree - make[2]: Leaving directory '$SRC_DIR/src/xxsds/build' - Install the project... - -- Install configuration: "Release" - make[1]: Leaving directory '$SRC_DIR/src/xxsds/build' - Copy pre-commit into .git/hooks - SUCCESS: sdsl was installed successfully! - The sdsl include files are located in '$SRC_DIR/src/sdslLite/include'. - The library files are located in '$SRC_DIR/src/sdslLite/lib'. - - Sample programs can be found in the examples-directory. - A program 'example.cpp' can be compiled with the command: - g -std=c14 -D__STDC_FORMAT_MACROS -I$SRC_DIR/src/sdslLite/include -L$SRC_DIR/src/sdslLite/lib -I$PREFIX/include -L$PREFIX/lib -Isrc/jlib/ -std=c14 -O3 -DNDEBUG -msse4.2 -Wall -Wextra -pedantic -ffast-math -funroll-loops -D__extern_always_inline="extern __always_inline" -stdlib=libc \ - -I$SRC_DIR/src/sdslLite/include -L$SRC_DIR/src/sdslLite/lib \ - example.cpp -ldivsufsort -ldivsufsort64 - - Tests in the test-directory - A cheat sheet in the extras/cheatsheet-directory. - Have fun! - x86_64-apple-darwin13.4.0-clang -D__STDC_FORMAT_MACROS -I$SRC_DIR/src/sdslLite/include -L$SRC_DIR/src/sdslLite/lib -I$PREFIX/include -L$PREFIX/lib -Isrc/jlib/ -std=c14 src/dicey.cpp -o src/dicey -Wl,-headerpad_max_install_names -Wl,-dead_strip_dylibs -Wl,-rpath,$PREFIX/lib -L$PREFIX/lib -L$SRC_DIR/src/htslib/ -L$SRC_DIR/src/htslib//lib -L$SRC_DIR/src/sdslLite//lib -lboost_iostreams -lboost_filesystem -lboost_system -lboost_program_options -lboost_date_time -ldl -lpthread -lhts -lz -llzma -lbz2 -Wl,-rpath,$SRC_DIR/src/htslib/ - api.build( - File "/opt/mambaforge/envs/bioconda/lib/python3.10/site-packages/conda_build/api.py", line 250, in build - return build_tree( - File "/opt/mambaforge/envs/bioconda/lib/python3.10/site-packages/conda_build/build.py", line 3638, in build_tree - packages_from_this = build( - File "/opt/mambaforge/envs/bioconda/lib/python3.10/site-packages/conda_build/build.py", line 2506, in build - utils.check_call_env( - File "/opt/mambaforge/envs/bioconda/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/mambaforge/envs/bioconda/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/mambaforge/envs/bioconda/conda-bld/dicey_1718321691422/work/conda_build.sh']' returned non-zero exit status 2. -# Last 100 lines of the build log. diff --git a/recipes/dicey/meta.yaml b/recipes/dicey/meta.yaml index d4c5c3060bf24..aff17789c7676 100644 --- a/recipes/dicey/meta.yaml +++ b/recipes/dicey/meta.yaml @@ -1,5 +1,5 @@ -{% set version = "0.3.1" %} -{% set sha256 = "11ac3b8b6dd1a7dc83bd4fd32ecb4781b6a63c4eedb7870a40bc989f8734914b" %} +{% set version = "0.3.3" %} +{% set sha256 = "69e84d07c2e6c9232f5cb80bde5d61a5285a334deb78a4cad6804c800dd3a3d6" %} package: name: dicey @@ -14,7 +14,7 @@ source: build: - number: 1 + number: 0 run_exports: - {{ pin_subpackage("dicey", max_pin="x.x") }} @@ -22,20 +22,16 @@ requirements: build: - make - {{ compiler('cxx') }} - - cmake >=3.10 + - cmake - autoconf - automake - pkg-config - - clangdev - - llvm-openmp host: - zlib - bzip2 - libdeflate - boost-cpp - htslib - - clangdev - - llvm-openmp run: - zlib - bzip2