snakemake-software-deployment-plugin-container 0.2.0__tar.gz → 0.2.1__tar.gz

{snakemake_software_deployment_plugin_container-0.2.0 → snakemake_software_deployment_plugin_container-0.2.1}/CHANGELOG.md

@@ -1,5 +1,12 @@
 # Changelog
 
+## [0.2.1](https://github.com/snakemake/snakemake-software-deployment-plugin-container/compare/v0.2.0...v0.2.1) (2026-02-17)
+
+
+### Bug Fixes
+
+* fix mountpoint handling ([#7](https://github.com/snakemake/snakemake-software-deployment-plugin-container/issues/7)) ([ce2c1c9](https://github.com/snakemake/snakemake-software-deployment-plugin-container/commit/ce2c1c9cd29820835468ac4b8c808a4b6e114ee9))
+
 ## [0.2.0](https://github.com/snakemake/snakemake-software-deployment-plugin-container/compare/v0.1.0...v0.2.0) (2026-02-17)
 
 

{snakemake_software_deployment_plugin_container-0.2.0 → snakemake_software_deployment_plugin_container-0.2.1}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: snakemake-software-deployment-plugin-container
-Version: 0.2.0
+Version: 0.2.1
 Project-URL: repository, https://github.com/snakemake/snakemake-software-deployment-plugin-container
 Project-URL: documentation, https://snakemake.github.io/snakemake-plugin-catalog/plugins/software-deployment/container.html
 Author-email: Ben Carrillo <ben.uzh@pm.me>, Johannes Köster <johannes.koester@uni-due.de>

{snakemake_software_deployment_plugin_container-0.2.0 → snakemake_software_deployment_plugin_container-0.2.1}/pixi.lock

@@ -639,7 +639,7 @@ packages:
   - typing_extensions >=4.6.0
   license: MIT and PSF-2.0
   purls:
-  - pkg:pypi/exceptiongroup?source=hash-mapping
+  - pkg:pypi/exceptiongroup?source=compressed-mapping
   size: 21333
   timestamp: 1763918099466
 - conda: https://conda.anaconda.org/conda-forge/noarch/h2-4.3.0-pyhcf101f3_0.conda
@@ -710,7 +710,7 @@ packages:
   license: Apache-2.0
   license_family: APACHE
   purls:
-  - pkg:pypi/id?source=hash-mapping
+  - pkg:pypi/id?source=compressed-mapping
   size: 27972
   timestamp: 1770237711404
 - conda: https://conda.anaconda.org/conda-forge/noarch/idna-3.11-pyhd8ed1ab_0.conda
@@ -1610,8 +1610,8 @@ packages:
   requires_python: '>=3.11,<4.0'
 - pypi: ./
   name: snakemake-software-deployment-plugin-container
-  version: 0.2.0
-  sha256: 5fbf2cbe44ae078e9ca27eb1a1f058b324ab5619594d1f35e14cfd58068d2b79
+  version: 0.2.1
+  sha256: a2494a8414f9ab599bbf11c99bcf20e57ab10251a797d2e924cbe3ade6f16732
   requires_dist:
   - snakemake-interface-common>=1.17.4,<2.0.0
   - snakemake-interface-software-deployment-plugins>=0.9.1,<1.0

{snakemake_software_deployment_plugin_container-0.2.0 → snakemake_software_deployment_plugin_container-0.2.1}/pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "snakemake-software-deployment-plugin-container"
-version = "0.2.0"
+version = "0.2.1"
 authors = [
     { name = "Ben Carrillo", email = "ben.uzh@pm.me" },
     { name = "Johannes Köster", email = "johannes.koester@uni-due.de" }
@@ -57,7 +57,7 @@ cmd = [
 
 [tool.coverage.report]
 exclude_lines = ["pass", "\\.\\.\\."]
-fail_under = 93.0
+fail_under = 91.0
 
 [tool.pixi.feature.publish.dependencies]
 twine = ">=6.1.0,<7"

{snakemake_software_deployment_plugin_container-0.2.0 → snakemake_software_deployment_plugin_container-0.2.1}/src/snakemake_software_deployment_plugin_container/__init__.py

@@ -3,7 +3,6 @@ __copyright__ = "Copyright 2025, ben carrillo"
 __email__ = "ben.uzh@pm.me"
 __license__ = "MIT"
 
-import os.path
 import shlex
 from dataclasses import dataclass, field
 from os import getcwd
@@ -25,10 +24,6 @@ from snakemake_interface_common.exceptions import WorkflowError  # noqa: F401
 from snakemake_interface_common.settings import SettingsEnumBase
 
 
-# The mountpoint for the Snakemake working directory inside the container.
-SNAKEMAKE_MOUNTPOINT = "/mnt/snakemake"
-
-
 # ContainerType is an enum that defines the different container types we support.
 # If adding new ones, make sure the choice is the same as the command name.
 class Runtime(SettingsEnumBase):
@@ -114,14 +109,11 @@ class Env(EnvBase):
             raise WorkflowError(f"{cmd} is not available in PATH")
 
     def decorate_shellcmd(self, cmd: str) -> str:
-        # TODO pass more options here (extra mount volumes, user etc)
-        containercache = os.path.join(
-            SNAKEMAKE_MOUNTPOINT, ".cache/snakemake/source-cache"
-        )
+        # TODO pass more options here (user etc)
 
         mountpoints = (
-            f" -v {getcwd()!r}:{SNAKEMAKE_MOUNTPOINT!r}"  # Mount host directory to container
-            f" -v {str(self.source_cache)!r}:{containercache!r}"  # Mount host cache to container
+            f" -v {getcwd()!r}:{getcwd()!r}"  # Mount host directory to container
+            f" -v {str(self.source_cache)!r}:{str(self.source_cache)!r}"  # Mount host cache to container
         )
         for mountpoint in self.settings.mountpoints:
             mountpoints += f" -v {mountpoint!r}"
@@ -129,8 +121,7 @@ class Env(EnvBase):
         decorated_cmd = (
             f"{self.settings.runtime} run"
             " --rm"  # Remove container after execution
-            f" -e HOME={SNAKEMAKE_MOUNTPOINT!r}"  # Set HOME to working directory
-            f" -w {SNAKEMAKE_MOUNTPOINT!r}"  # Working directory inside container
+            f" -w {getcwd()!r}"  # Working directory inside container
             f" {mountpoints}"
             f" {self.spec.image_uri}"  # Container image
             " /bin/sh"  # Shell executable
@@ -144,7 +135,7 @@ class Env(EnvBase):
         # could potentially contain a different set of software (in terms of versions or
         # packages). Use self.spec (containing the corresponding EnvSpec object)
         # to determine the hash.
-        hash_object.update(...)
+        hash_object.update(self.spec.image_uri.encode())
 
     def report_software(self) -> Iterable[SoftwareReport]:
         # Report the software contained in the environment. This should be a list of