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https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
Matthias Bernt
9e48ceb169
fixes https://github.com/galaxyproject/galaxy/issues/15673 - singularity: add `--no_mount tmp` (analogous to docker's default) - do not bind `$TMPDIR:rw,$TMP:rw,$TEMP:rw` by default - instead (by default )provide a writable `/tmp` via `$_GALAXY_JOB_TMP_DIR/:/tmp:rw` note that this dir is still also available as `$_GALAXY_JOB_TMP_DIR:rw`
19 lines
585 B
Python
19 lines
585 B
Python
from galaxy.tool_util.deps.singularity_util import build_singularity_run_command
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def test_build_singularity_run_command_defaults():
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cmd = build_singularity_run_command(
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container_command="echo hi",
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image="busybox",
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)
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assert cmd == "singularity -s exec --cleanenv --no-mount tmp busybox echo hi"
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def test_build_singularity_run_command_no_cleanenv():
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cmd = build_singularity_run_command(
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container_command="echo hi",
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image="busybox",
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cleanenv=False,
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)
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assert cmd == "singularity -s exec --no-mount tmp busybox echo hi"
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