snakemake-software-deployment-plugin-container 0.2.1__tar.gz → 0.3.0__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (13) hide show
  1. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/CHANGELOG.md +7 -0
  2. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/PKG-INFO +1 -1
  3. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/pixi.lock +57 -60
  4. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/pyproject.toml +1 -1
  5. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/src/snakemake_software_deployment_plugin_container/__init__.py +5 -1
  6. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/.github/workflows/ci.yml +0 -0
  7. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/.github/workflows/conventional-prs.yml +0 -0
  8. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/.github/workflows/release-please.yml +0 -0
  9. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/.gitignore +0 -0
  10. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/LICENSE +0 -0
  11. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/README.md +0 -0
  12. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/setup.cfg +0 -0
  13. {snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/tests/test_plugin.py +0 -0
{snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/CHANGELOG.md RENAMED
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  # Changelog
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+ ## [0.3.0](https://github.com/snakemake/snakemake-software-deployment-plugin-container/compare/v0.2.1...v0.3.0) (2026-02-18)
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+ ### Features
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+ * always mount system tempdir ([60ef0bd](https://github.com/snakemake/snakemake-software-deployment-plugin-container/commit/60ef0bd3384edffc8816b687b88a321da4b053f3))
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  ## [0.2.1](https://github.com/snakemake/snakemake-software-deployment-plugin-container/compare/v0.2.0...v0.2.1) (2026-02-17)
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{snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/PKG-INFO RENAMED
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  Metadata-Version: 2.4
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  Name: snakemake-software-deployment-plugin-container
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- Version: 0.2.1
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+ Version: 0.3.0
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  Project-URL: repository, https://github.com/snakemake/snakemake-software-deployment-plugin-container
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  Project-URL: documentation, https://snakemake.github.io/snakemake-plugin-catalog/plugins/software-deployment/container.html
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  Author-email: Ben Carrillo <ben.uzh@pm.me>, Johannes Köster <johannes.koester@uni-due.de>
{snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/pixi.lock RENAMED
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{snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/pyproject.toml RENAMED
@@ -1,6 +1,6 @@
1
1
  [project]
2
2
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3
- version = "0.2.1"
3
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4
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5
5
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6
6
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{snakemake_software_deployment_plugin_container-0.2.1 → snakemake_software_deployment_plugin_container-0.3.0}/src/snakemake_software_deployment_plugin_container/__init__.py RENAMED
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4
4
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5
5
 
6
6
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7
+ import tempfile
7
8
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8
9
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9
10
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@@ -46,7 +47,8 @@ class Settings(SoftwareDeploymentSettingsBase):
46
47
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47
48
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48
49
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49
- "help": "Additional mount points (format: hostpath:containerpath)",
50
+ "help": "Additional mount points (format: hostpath:containerpath). "
51
+ "Current working directory and the system tmpdir are always mounted.",
50
52
  },
51
53
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52
54
 
@@ -110,10 +112,12 @@ class Env(EnvBase):
110
112
 
111
113
  def decorate_shellcmd(self, cmd: str) -> str:
112
114
  # TODO pass more options here (user etc)
115
+ tmpdir = tempfile.gettempdir()
113
116
 
114
117
  mountpoints = (
115
118
  f" -v {getcwd()!r}:{getcwd()!r}" # Mount host directory to container
116
119
  f" -v {str(self.source_cache)!r}:{str(self.source_cache)!r}" # Mount host cache to container
120
+ f" -v {tmpdir!r}:{tmpdir!r}" # always mount the temporary directory
117
121
  )
118
122
  for mountpoint in self.settings.mountpoints:
119
123
  mountpoints += f" -v {mountpoint!r}"