update tests with removed vcf suffix

PGScatalog · Apr 18, 2024 · 6505818 · 6505818
1 parent 9f2a710
commit 6505818
Show file tree

Hide file tree

Showing 3 changed files with 10 additions and 10 deletions.
diff --git a/tests/modules/plink2/relabelpvar/test.yml b/tests/modules/plink2/relabelpvar/test.yml
@@ -5,11 +5,11 @@
     - fast
     - module
   files:
-    - path: output/plink2/GRCh37_test_22_vcf.psam
+    - path: output/plink2/GRCh37_test_22.psam
       md5sum: 90f1430b71153d59bc14e9499b0366f4
-    - path: output/plink2/GRCh37_test_22_vcf.pgen
+    - path: output/plink2/GRCh37_test_22.pgen
       md5sum: be32a51a5509111327a5deb6a3610b2d
-    - path: output/plink2/GRCh37_test_22_vcf.pvar.zst
+    - path: output/plink2/GRCh37_test_22.pvar.zst
     - path: output/plink2/versions.yml
       contains:
         - "plink2: 2.00a3.3"    
diff --git a/tests/modules/plink2/vcf/test.yml b/tests/modules/plink2/vcf/test.yml
@@ -5,9 +5,9 @@
     - plink2
     - fast
   files:
-    - path: output/plink2/GRCh37_test_22_vcf.pgen
-    - path: output/plink2/GRCh37_test_22_vcf.psam
-    - path: output/plink2/GRCh37_test_22_vcf.pvar.zst
+    - path: output/plink2/GRCh37_test_22.pgen
+    - path: output/plink2/GRCh37_test_22.psam
+    - path: output/plink2/GRCh37_test_22.pvar.zst
     - path: output/plink2/versions.yml
       contains:
         - "plink2: 2.00a3.3"
diff --git a/tests/subworkflows/test_make_compatible.yml b/tests/subworkflows/test_make_compatible.yml
@@ -19,10 +19,10 @@
     - fast
   files:
     - path: output/combine/scorefiles.txt.gz
-    - path: output/plink2/GRCh37_cineca_22_vcf.pgen
-    - path: output/plink2/GRCh37_cineca_22_vcf.pvar.zst
-    - path: output/plink2/GRCh37_cineca_22_vcf.psam
-    - path: output/plink2/GRCh37_cineca_22_vcf.vmiss.gz      
+    - path: output/plink2/GRCh37_cineca_22.pgen
+    - path: output/plink2/GRCh37_cineca_22.pvar.zst
+    - path: output/plink2/GRCh37_cineca_22.psam
+    - path: output/plink2/GRCh37_cineca_22.vmiss.gz      
 
 - name: test make compatible subworkflow with pfile
   command: nextflow run main.nf --only_compatible -c ./tests/config/nextflow.config