更新 'tasks/fusioncatcher.wdl'

dir to fastq

tasks/fusioncatcher.wdl

@@ -1,6 +1,7 @@
 task fusioncatcher{
     String sample_id
-    File sample_fastq_dir
+    File fastq1
+    File fastq2
     File database_dir
 	
     String docker
@@ -11,14 +12,15 @@ task fusioncatcher{
 	
         set -o pipefail
         set -e
-
+        mkdir -p ${sample_id}/input
         mkdir -p ${sample_id}/output
-
+        cp ${fastq1} ${sample_id}/input
+        cp ${fastq2} ${sample_id}/input
 
         /software/fusioncatcher/bin/fusioncatcher \
             -d ${database_dir} \
             -p 4 \
-            --input ${sample_fastq_dir} \
+            --input ${sample_id}/input \
             --output ${sample_id}/output
 
     >>>