try to update workflow

galaxyproject · Aug 30, 2023 · 3a68d54 · 3a68d54
1 parent 1a8ee07
commit 3a68d54
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diff --git a/workflows/transcriptomics/rnaseq-sr/rnaseq-sr-tests.yml b/workflows/transcriptomics/rnaseq-sr/rnaseq-sr-tests.yml
@@ -14,6 +14,9 @@
     forward_adapter: GATCGGAAGAGCACACGTCTGAACTCCAGTCAC
     reference_genome: dm6
     strandness: unstranded
+    split coverage by strand: false
+    cufflinks_FPKM: true
+    stringtie_FPKM: true
   outputs:
     output_log:
       element_tests:
@@ -72,13 +75,13 @@
           asserts:
             has_text:
               text: "FBgn0010247\t14"
-    transcripts_expression:
+    transcripts_expression_cufflinks:
       element_tests:
         GSM461177:
           asserts:
             has_text:
               text: "FBtr0078104\t-\t-\tFBgn0031217\tCG11377\t-\tchr2L:102379-104142\t1583\t0.626702\t18.291\t9.78604\t26.796\tOK"
-    genes_expression:
+    genes_expression_cufflinks:
       element_tests:
         GSM461177:
           asserts:
@@ -90,15 +93,3 @@
             has_size:
               value: 6075761
               delta: 600000
-    negative strand coverage:
-      element_tests:
-        GSM461177:
-            has_size:
-              value: 3103918
-              delta: 300000
-    positive strand coverage:
-      element_tests:
-        GSM461177:
-            has_size:
-              value: 3103918
-              delta: 300000