Michael R. Crusoe pushed to branch master at Debian Med / toil
Commits:
7eddb5f5 by Michael R. Crusoe at 2025-03-17T19:11:25+01:00
more test fixes
- - - - -
2 changed files:
- debian/patches/fix_tests
- debian/rules
Changes:
=====================================
debian/patches/fix_tests
=====================================
@@ -430,7 +430,7 @@ index 4098976..822cfb4 100644
"--importWorkersDisk=10MiB",
"--realTimeLogging=True",
diff --git a/src/toil/test/docs/scripts/tutorial_staging.py
b/src/toil/test/docs/scripts/tutorial_staging.py
-index 17c2782..31a84d3 100644
+index 17c2782..c2099ad 100644
--- a/src/toil/test/docs/scripts/tutorial_staging.py
+++ b/src/toil/test/docs/scripts/tutorial_staging.py
@@ -3,7 +3,7 @@ import os
@@ -468,7 +468,7 @@ index 17c2782..31a84d3 100644
toil.exportFile(
outputFileID,
- "file://" + os.path.abspath(os.path.join(ioFileDirectory,
"out.txt")),
-+ "file://" +
get_data("toil/test/docs/scripts/stagingExampleFiles/out.txt"),
++ "file://" + os.path.join(tmp + "out.txt"),
)
diff --git a/src/toil/test/provisioners/aws/awsProvisionerTest.py
b/src/toil/test/provisioners/aws/awsProvisionerTest.py
index cae25e4..a505da4 100644
=====================================
debian/rules
=====================================
@@ -5,7 +5,7 @@ include /usr/share/dpkg/default.mk
export PYBUILD_NAME=toil
export PYBUILD_DESTDIR_python3=debian/toil/
-PYBUILD_TEST_ARGS=$(DEB_BUILD_OPTION_PARALLEL:%=-n %) --dist loadscope -vv -W
ignore -k "not (testVirtualEnv)"
+PYBUILD_TEST_ARGS=$(DEB_BUILD_OPTION_PARALLEL:%=-n %) --dist loadscope -vv -W
ignore -k "not (testVirtualEnv or DockstoreLookupTest)"
# testVirtualEnv - requires an internet connection to download packages from
PyPI
ifeq ($(PYBUILD_AUTOPKGTEST),1)
PYBUILD_TEST_ARGS += --ignore
/usr/lib/python3/dist-packages/toil/test/lib/aws/test_s3.py --ignore
/usr/lib/python3/dist-packages/toil/test/provisioners/aws/awsProvisionerTest.py
--ignore /usr/lib/python3/dist-packages/toil/test/wdl/wdltoil_test.py --ignore
/usr/lib/python3/dist-packages/toil/test/cwl/cwlTest.py --ignore
/usr/lib/python3/dist-packages/toil/test/lib/test_ec2.py --ignore
/usr/lib/python3/dist-packages/toil/test/batchSystems/batchSystemTest.py
--ignore /usr/lib/python3/dist-packages/toil/test/lib/aws/test_iam.py --ignore
/usr/lib/python3/dist-packages/toil/test/provisioners/clusterTest.py --ignore
/usr/lib/python3/dist-packages/toil/test/wdl/wdltoil_test_kubernetes.py
--ignore
/usr/lib/python3/dist-packages/toil/test/cactus/test_cactus_integration.py
--pyargs toil.test
View it on GitLab:
https://salsa.debian.org/med-team/toil/-/commit/7eddb5f52a63d022dbb115f37eec138b4a4e2db2
--
View it on GitLab:
https://salsa.debian.org/med-team/toil/-/commit/7eddb5f52a63d022dbb115f37eec138b4a4e2db2
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