更新 'tasks/rmats.wdl'

tasks/rmats.wdl

@@ -1,7 +1,7 @@
 task rmats {
     String sample_id
-    File b1_txt
-    File b2_txt
+    File bam1
+    File bam2
     File reference_gtf_file
     
 
@@ -17,9 +17,12 @@ task rmats {
 
         mkdir -p ${sample_id}/output
         mkdir -p ${sample_id}/tmp_output
- ### 命令行无需修改
-        python /usr/local/bin/rmats.py --b1 ${b1_txt} \
-            --b2 ${b2_txt} \
+        
+        echo ${bam1} > b1_txt
+        echo ${bam2} > b2_txt
+                  
+        python /usr/local/bin/rmats.py --b1 b1_txt \
+            --b2 b2_txt \
             --gtf ${reference_gtf_file} \
             -t paired \
             --readLength 150 \