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[ci skip] add build failure record for recipe recipes/cancerit-allele…
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BiocondaBot committed Jan 1, 2025
1 parent bf3c0ab commit 73ec2a7
Showing 1 changed file with 9 additions and 9 deletions.
18 changes: 9 additions & 9 deletions recipes/cancerit-allelecount/build_failure.linux-aarch64.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -36,17 +36,17 @@ log: |-
host_alias=aarch64-conda-linux-gnu
-BUILD=aarch64-conda_cos7-linux-gnu
-CONDA_BUILD_SYSROOT=
export LIBRARY_PATH=/opt/conda/conda-bld/cancerit-allelecount_1735743546697/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/lib
LIBRARY_PATH=/opt/conda/conda-bld/cancerit-allelecount_1735743546697/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/lib
export INCPATH=/opt/conda/conda-bld/cancerit-allelecount_1735743546697/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/include
INCPATH=/opt/conda/conda-bld/cancerit-allelecount_1735743546697/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/include
cd /opt/conda/conda-bld/cancerit-allelecount_1735743546697/work/c
export LIBRARY_PATH=/opt/conda/conda-bld/cancerit-allelecount_1735771940856/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/lib
LIBRARY_PATH=/opt/conda/conda-bld/cancerit-allelecount_1735771940856/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/lib
export INCPATH=/opt/conda/conda-bld/cancerit-allelecount_1735771940856/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/include
INCPATH=/opt/conda/conda-bld/cancerit-allelecount_1735771940856/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/include
cd /opt/conda/conda-bld/cancerit-allelecount_1735771940856/work/c
mkdir bin
sed -i 's/CC = gcc /compiler = ${CC} /g' Makefile
sed -i 's/$(CC) /$(compiler) /g' Makefile
sed -i 's#HTSLOC?=$(HTSLIB)#HTSLOC=${PREFIX}/lib#g' Makefile
sed -i 's#prefix=?/usr/local#prefix=${PREFIX}#g' Makefile
make -j 4 'OPTINC=-I/opt/conda/conda-bld/cancerit-allelecount_1735743546697/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/include -L/opt/conda/conda-bld/cancerit-allelecount_1735743546697/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/lib'
make -j 4 'OPTINC=-I/opt/conda/conda-bld/cancerit-allelecount_1735771940856/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/include -L/opt/conda/conda-bld/cancerit-allelecount_1735771940856/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pl/lib'
rm -f ./src/*.o *~ ./bin/alleleCounter ./bin/* ./tests/tests_log ./tests/bam_access_tests ./src/*.gcda ./src/*.gcov ./src/*.gcno *.gcda *.gcov *.gcno ./tests/*.gcda ./tests/*.gcov ./tests/*.gcno
mkdir -p ./bin
mkdir -p ./htslib_tmp
Expand All @@ -67,7 +67,7 @@ log: |-
tests/bam_access_tests.c:45:13: warning: variable 'res' set but not used [-Wunused-but-set-variable]
45 | int res = bam_access_get_position_base_counts(chr,pos,stats,0,NULL);
| ^~~
/opt/conda/conda-bld/cancerit-allelecount_1735743546697/_build_env/bin/../lib/gcc/aarch64-conda-linux-gnu/13.3.0/../../../../aarch64-conda-linux-gnu/bin/ld: cannot find ./src/bam_access.o: No such file or directory
/opt/conda/conda-bld/cancerit-allelecount_1735771940856/_build_env/bin/../lib/gcc/aarch64-conda-linux-gnu/13.3.0/../../../../aarch64-conda-linux-gnu/bin/ld: cannot find ./src/bam_access.o: No such file or directory
collect2: error: ld returned 1 exit status
make: *** [<builtin>: tests/bam_access_tests] Error 1
make: *** Waiting for unfinished jobs....
Expand All @@ -85,7 +85,7 @@ log: |-
return _func_defaulting_env_to_os_environ("call", *popenargs, **kwargs)
File "/opt/conda/lib/python3.10/site-packages/conda_build/utils.py", line 380, in _func_defaulting_env_to_os_environ
raise subprocess.CalledProcessError(proc.returncode, _args)
subprocess.CalledProcessError: Command '['/bin/bash', '-o', 'errexit', '/opt/conda/conda-bld/cancerit-allelecount_1735743546697/work/conda_build.sh']' returned non-zero exit status 2.
subprocess.CalledProcessError: Command '['/bin/bash', '-o', 'errexit', '/opt/conda/conda-bld/cancerit-allelecount_1735771940856/work/conda_build.sh']' returned non-zero exit status 2.
The above exception was the direct cause of the following exception:
Expand All @@ -100,5 +100,5 @@ log: |-
packages_from_this = build(
File "/opt/conda/lib/python3.10/site-packages/conda_build/build.py", line 2566, in build
raise BuildScriptException(str(exc), caused_by=exc) from exc
conda_build.exceptions.BuildScriptException: Command '['/bin/bash', '-o', 'errexit', '/opt/conda/conda-bld/cancerit-allelecount_1735743546697/work/conda_build.sh']' returned non-zero exit status 2.
conda_build.exceptions.BuildScriptException: Command '['/bin/bash', '-o', 'errexit', '/opt/conda/conda-bld/cancerit-allelecount_1735771940856/work/conda_build.sh']' returned non-zero exit status 2.
# Last 100 lines of the build log.

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