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build_failure.linux-64.yaml
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build_failure.linux-64.yaml
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recipe_sha: 7b9055e61d705d6f8c6facf7d825e0f92a4be7eb5e6c9bf6c8c85b608b2f2c9c # 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: |-
-- Detecting CXX compile features - done
-- Found Boost: $PREFIX/lib/cmake/Boost-1.85.0/BoostConfig.cmake (found suitable version "1.85.0", minimum required is "1.54.0") found components: filesystem iostreams log system thread unit_test_framework
-- ** Boost Include: $PREFIX/include
-- ** Boost Libraries: $PREFIX/lib
-- ** Boost Link-Libs: Boost::filesystem;Boost::iostreams;Boost::log;Boost::system;Boost::thread;Boost::unit_test_framework
CMake Warning (dev) at CMake/deps.cmake:27 (find_package):
Policy CMP0074 is not set: find_package uses <PackageName>_ROOT variables.
Run "cmake --help-policy CMP0074" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
CMake variable ZLIB_ROOT is set to:
/opt/conda/conda-bld/dropest_1717710430209/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_place
For compatibility, CMake is ignoring the variable.
Call Stack (most recent call first):
CMakeLists.txt:18 (include)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found ZLIB: $PREFIX/lib/libz.so (found version "1.2.13")
-- Found Threads: TRUE
CMake Warning (dev) at /opt/conda/conda-bld/dropest_1717710430209/_build_env/share/cmake-3.29/Modules/FindPackageHandleStandardArgs.cmake:438 (message):
The package name passed to find_package_handle_standard_args (BAMTOOLS)
does not match the name of the calling package (BamTools). This can lead
to problems in calling code that expects find_package result variables
(e.g., _FOUND) to follow a certain pattern.
Call Stack (most recent call first):
CMake/FindBamTools.cmake:15 (FIND_PACKAGE_HANDLE_STANDARD_ARGS)
CMake/deps.cmake:31 (find_package)
CMakeLists.txt:18 (include)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found BAMTOOLS: $PREFIX/lib/../lib/libbamtools.so
CMake Warning (dev) at CMake/deps.cmake:34 (find_package):
Policy CMP0074 is not set: find_package uses <PackageName>_ROOT variables.
Run "cmake --help-policy CMP0074" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
CMake variable R_ROOT is set to:
/opt/conda/conda-bld/dropest_1717710430209/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_place
For compatibility, CMake is ignoring the variable.
Call Stack (most recent call first):
CMakeLists.txt:18 (include)
This warning is for project developers. Use -Wno-dev to suppress it.
During startup - Warning message:
Setting LC_TIME failed, using "C"
During startup - Warning message:
Setting LC_TIME failed, using "C"
During startup - Warning message:
Setting LC_TIME failed, using "C"
During startup - Warning message:
Setting LC_TIME failed, using "C"
-- Found R: $PREFIX/lib/R/lib/libR.so
-- Found R: $PREFIX
-- Configuring done (1.5s)
-- Generating done (0.1s)
-- Build files have been written to: $SRC_DIR/build
[ 1%] Building CXX object CMakeFiles/DropTools.dir/Tools/CollisionsAdjuster.cpp.o
[ 2%] Building CXX object CMakeFiles/DropTools.dir/Tools/GeneAnnotation/GtfRecord.cpp.o
[ 4%] Building CXX object CMakeFiles/DropTools.dir/Tools/GeneAnnotation/Interval.cpp.o
[ 5%] Building CXX object CMakeFiles/DropTools.dir/Tools/GeneAnnotation/RefGenesContainer.cpp.o
[ 7%] Building CXX object CMakeFiles/DropTools.dir/Tools/Logs.cpp.o
[ 8%] Building CXX object CMakeFiles/DropTools.dir/Tools/ReadParameters.cpp.o
/opt/conda/conda-bld/dropest_1717710430209/work/Tools/ReadParameters.cpp: In static member function 'static std::pair<std::__cxx11::basic_string<char>, Tools::ReadParameters> Tools::ReadParameters::parse_from_string(const std::string&, char)':
/opt/conda/conda-bld/dropest_1717710430209/work/Tools/ReadParameters.cpp:61:22: error: 'vector' is not a member of 'std'
61 | std::vector<std::string> parsed;
| ^~~~~~
/opt/conda/conda-bld/dropest_1717710430209/work/Tools/ReadParameters.cpp:2:1: note: 'std::vector' is defined in header '<vector>'; did you forget to '#include <vector>'?
1 | #include "ReadParameters.h"
|#include <vector>
2 |
/opt/conda/conda-bld/dropest_1717710430209/work/Tools/ReadParameters.cpp:61:40: error: expected primary-expression before '>' token
61 | std::vector<std::string> parsed;
| ^
/opt/conda/conda-bld/dropest_1717710430209/work/Tools/ReadParameters.cpp:61:42: error: 'parsed' was not declared in this scope; did you mean 'pause'?
61 | std::vector<std::string> parsed;
| ^~~~~~
| pause
make[2]: *** [CMakeFiles/DropTools.dir/build.make:146: CMakeFiles/DropTools.dir/Tools/ReadParameters.cpp.o] Error 1
make[1]: *** [CMakeFiles/Makefile2:101: CMakeFiles/DropTools.dir/all] Error 2
make: *** [Makefile:146: 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/dropest_1717710430209/work/conda_build.sh']' returned non-zero exit status 2.
# Last 100 lines of the build log.