Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

fix: allow apptainer as a successor to singularity. #1706

Merged
merged 1 commit into from Jun 15, 2022
Merged

fix: allow apptainer as a successor to singularity. #1706

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Jump to
Jump to file
Failed to load files.
Diff view
Diff view
15 changes: 10 additions & 5 deletions snakemake/deployment/singularity.py
View file
Open in desktop
Expand Up @@ -173,9 +173,14 @@ def check(self):
raise WorkflowError(
"Failed to get singularity version:\n{}".format(e.stderr.decode())
)
v = v.rsplit(" ", 1)[-1]
if v.startswith("v"):
v = v[1:]
if not LooseVersion(v) >= LooseVersion("2.4.1"):
raise WorkflowError("Minimum singularity version is 2.4.1.")
if v.startswith("apptainer"):
v = v.rsplit(" ", 1)[-1]
if not LooseVersion(v) >= LooseVersion("1.0.0"):
raise WorkflowError("Minimum apptainer version is 1.0.0.")
else:
v = v.rsplit(" ", 1)[-1]
if v.startswith("v"):
v = v[1:]
if not LooseVersion(v) >= LooseVersion("2.4.1"):
raise WorkflowError("Minimum singularity version is 2.4.1.")
self._version = v