virtool-workflow 5.5.0a3__tar.gz → 6.0.0a1__tar.gz

{virtool_workflow-5.5.0a3 → virtool_workflow-6.0.0a1}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: virtool-workflow
-Version: 5.5.0a3
+Version: 6.0.0a1
 Summary: A framework for developing bioinformatics workflows for Virtool.
 Home-page: https://github.com/virtool/virtool-workflow
 License: MIT

{virtool_workflow-5.5.0a3 → virtool_workflow-6.0.0a1}/pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "virtool-workflow"
-version = "5.5.0-alpha.3"
+version = "6.0.0-alpha.1"
 description = "A framework for developing bioinformatics workflows for Virtool."
 authors = ["Ian Boyes", "Blake Smith", "Ryan Fang"]
 license = "MIT"

{virtool_workflow-5.5.0a3 → virtool_workflow-6.0.0a1}/virtool_workflow/analysis/fastqc.py

@@ -397,15 +397,12 @@ def _parse_fastqc(fastqc_path: Path, output_path: Path) -> dict:
 class FastQCRunner(Protocol):
     """A protocol describing callables that can be used to run FastQC."""
 
-    async def __call__(self, paths: ReadPaths) -> dict:
+    async def __call__(self, paths: ReadPaths, output_path: Path) -> dict:
         ...
 
 
 @fixture
-async def fastqc(
-    run_subprocess: RunSubprocess,
-    work_path: Path,
-):
+async def fastqc(run_subprocess: RunSubprocess):
     """
     Provides an asynchronous function that can run FastQC as a subprocess.
 
@@ -441,6 +438,4 @@ async def fastqc(
 
         return _parse_fastqc(temp_path, output_path)
 
-    yield func
-
-    await asyncio.to_thread(shutil.rmtree, temp_path)
+    return func