Changed class name: 'MEIWorkflow' -> 'MeiWorkflow'.

bihealth · Sep 27, 2022 · ec32d31 · ec32d31
1 parent ad02391
commit ec32d31
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Showing 3 changed files with 8 additions and 8 deletions.
diff --git a/snappy_pipeline/workflows/targeted_seq_mei_calling/Snakefile b/snappy_pipeline/workflows/targeted_seq_mei_calling/Snakefile
@@ -4,7 +4,7 @@
 import os
 
 from snappy_pipeline import expand_ref
-from snappy_pipeline.workflows.targeted_seq_mei_calling import MEIWorkflow
+from snappy_pipeline.workflows.targeted_seq_mei_calling import MeiWorkflow
 
 
 # Configuration ===============================================================
@@ -18,7 +18,7 @@ config, lookup_paths, config_paths = expand_ref("config.yaml", config)
 
 # WorkflowImpl Object Setup ===================================================
 
-wf = MEIWorkflow(workflow, config, lookup_paths, config_paths, os.getcwd())
+wf = MeiWorkflow(workflow, config, lookup_paths, config_paths, os.getcwd())
 
 # Rules =======================================================================
 

diff --git a/snappy_pipeline/workflows/targeted_seq_mei_calling/__init__.py b/snappy_pipeline/workflows/targeted_seq_mei_calling/__init__.py
@@ -292,7 +292,7 @@ def get_resource_usage(self, action):
         )
 
 
-class MEIWorkflow(BaseStep):
+class MeiWorkflow(BaseStep):
     """Perform germline mobile element insertion detection."""
 
     #: Workflow name

diff --git a/tests/snappy_pipeline/workflows/test_workflows_targeted_seq_mei_calling.py b/tests/snappy_pipeline/workflows/test_workflows_targeted_seq_mei_calling.py
@@ -7,7 +7,7 @@
 import ruamel.yaml as ruamel_yaml
 from snakemake.io import Wildcards
 
-from snappy_pipeline.workflows.targeted_seq_mei_calling import MEIWorkflow
+from snappy_pipeline.workflows.targeted_seq_mei_calling import MeiWorkflow
 
 from .conftest import patch_module_fs
 
@@ -57,7 +57,7 @@ def mei_workflow(
     germline_sheet_fake_fs,
     mocker,
 ):
-    """Return MEIWorkflow object pre-configured with germline sheet"""
+    """Return MeiWorkflow object pre-configured with germline sheet"""
     # Create reference genome file
     germline_sheet_fake_fs.fs.create_file(
         "/path/to/blast_ref.fa",
@@ -73,7 +73,7 @@ def mei_workflow(
     # can obtain paths from the function as if we really had a NGSMappingPipelineStep here
     dummy_workflow.globals = {"ngs_mapping": lambda x: "NGS_MAPPING/" + x}
     # Construct the workflow object
-    return MEIWorkflow(
+    return MeiWorkflow(
         dummy_workflow,
         minimal_config,
         config_lookup_paths,
@@ -174,11 +174,11 @@ def test_scramble_analysis_step_part_get_resource_usage(mei_workflow):
             assert actual == expected, msg_error
 
 
-# Tests for MEIWorkflow      -----------------------------------------------------------------------
+# Tests for MeiWorkflow      -----------------------------------------------------------------------
 
 
 def test_mei_workflow_files(mei_workflow):
-    """Tests MEIWorkflow.get_result_files()
+    """Tests MeiWorkflow.get_result_files()
     Tests simple functionality of the workflow: checks if file structure is created according
     to the expected results for scramble.
     """