updated the padded command

broadinstitute · Jul 2, 2024 · 7bf2094 · 7bf2094
1 parent c6aa0f3
commit 7bf2094
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/CNV-Profiler/CNV-Profiler.wdl b/CNV-Profiler/CNV-Profiler.wdl
@@ -121,7 +121,7 @@ task GetPaddedCnvBed {
         source activate env_viz
         python3 <<CODE
         padded_cnv_interval_list = []
-        with open(~{cnvBedFile}, 'r') as f:
+        with open("~{cnvBedFile}", 'r') as f:
             for line in f:
                 chr = line.strip().split('\t')[0]
                 start = line.strip().split('\t')[1]