Updating reference to cut2tsv input file

OpenOmics · Sep 11, 2023 · 407c279 · 407c279
1 parent 3c976bb
commit 407c279
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Showing 2 changed files with 4 additions and 4 deletions.
diff --git a/workflow/Snakefile b/workflow/Snakefile
@@ -1,6 +1,6 @@
 # Python standard library
 from os.path import join
-import os, sys
+import os, sys, json
 
 # Local imports
 from scripts.common import (
@@ -326,4 +326,4 @@ include: join("rules", "quant.smk")
 include: join("rules", "editing_a-to-i.smk")
 include: join("rules", "polya.smk")
 include: join("rules", "diffexp.smk")
-include: join("rules", "altsplice.smk")
+include: join("rules", "altsplice.smk")
diff --git a/workflow/rules/diffexp.smk b/workflow/rules/diffexp.smk
@@ -60,7 +60,7 @@ rule flair_diffexp:
     # Create per-contrast counts matrix,
     # extracts samples by their col name
     {params.script} -c ${{grp1_samples}} ${{grp2_samples}} \\
-        -i {{input.counts}} \\
+        -i {input.counts} \\
     > {output.counts}
 
     # Find differential gene/isoform 
@@ -72,4 +72,4 @@ rule flair_diffexp:
         --out_dir {params.outdir} \\
         --exp_thresh 10 \\
         --out_dir_force
-    """
+    """