refactor: move subworkflows

CCBR · Oct 20, 2023 · 7cafadc · 7cafadc
1 parent 345bfe8
commit 7cafadc
Show file tree

Hide file tree

Showing 5 changed files with 19 additions and 13 deletions.
diff --git a/tests/subworkflows/CCBR/custom/filter_blacklist/test.yml b/tests/subworkflows/CCBR/custom/filter_blacklist/test.yml
diff --git a/...lows/CCBR/custom/filter_blacklist/main.nf → ...ubworkflows/CCBR/filter_blacklist/main.nf b/...lows/CCBR/custom/filter_blacklist/main.nf → ...ubworkflows/CCBR/filter_blacklist/main.nf
diff --git a/...R/custom/filter_blacklist/nextflow.config → ...ows/CCBR/filter_blacklist/nextflow.config b/...R/custom/filter_blacklist/nextflow.config → ...ows/CCBR/filter_blacklist/nextflow.config
diff --git a/tests/subworkflows/CCBR/filter_blacklist/test.yml b/tests/subworkflows/CCBR/filter_blacklist/test.yml
@@ -0,0 +1,19 @@
+- name: filter_blacklist test_filter_blacklist_single
+  command: nextflow run ./tests/subworkflows/CCBR/filter_blacklist/main.nf -entry test_filter_blacklist_single -c tests/config/nextflow.config -c tests/config/test_data_CCBR.config
+  tags:
+    - subworkflows/filter_blacklist
+  files:
+    - path: output/bam2fastq/test.R1.fastq.gz
+- name: filter_blacklist test_filter_blacklist_paired
+  command: nextflow run ./tests/subworkflows/CCBR/filter_blacklist/main.nf -entry test_filter_blacklist_paired -c tests/config/nextflow.config -c tests/config/test_data_CCBR.config
+  tags:
+    - subworkflows/filter_blacklist
+  files:
+    - path: output/bam2fastq/test.R1.fastq.gz
+    - path: output/bam2fastq/test.R2.fastq.gz
+- name: filter_blacklist test_filter_blacklist_single stub
+  command: nextflow run ./tests/subworkflows/CCBR/filter_blacklist/main.nf -entry test_filter_blacklist_single -c tests/config/nextflow.config -c tests/config/test_data_CCBR.config -stub
+  tags:
+    - subworkflows/filter_blacklist
+  files:
+    - path: output/bam2fastq/test.R1.fastq.gz
diff --git a/...filter_blacklist/test_filter_blacklist.py → ...filter_blacklist/test_filter_blacklist.py b/...filter_blacklist/test_filter_blacklist.py → ...filter_blacklist/test_filter_blacklist.py