更新 'tasks/spladder_merge.wdl'

tasks/spladder_merge.wdl

@@ -30,10 +30,9 @@ task spladder_merge {
           --bams alignment.txt \
           --confidence 2 \
           --merge-strat merge_graphs \
-          --validate-sg \
           --readlen 150 \
           --parallel $nt \
-          --event-types exon_skip,intron_retention,alt_3prime,alt_5prime,mutex_exons,mult_exon_skip
+          --event-types exon_skip
           
         find . -depth > fileList.txt
     >>>
@@ -52,9 +51,8 @@ task spladder_merge {
         File alignment_bai = "alignment_bai.txt"
         File pickle_txt = "pickle.txt"
         Array[File] AS_gff = glob("${sample_id}/spladder_out/*.gff3")
-        Array[File] AS_pickle = glob("${sample_id}/spladder_out/*.pickle")
         Array[File] AS_gz = glob("${sample_id}/spladder_out/*.gz")
-        Array[File] AS_hdf5 = glob("${sample_id}/spladder_out/*.hdf5")
+        Array[File] spladder_out = glob("${sample_id}/spladder_out/*")
         Array[File] spladder = glob("${sample_id}/spladder_out/spladder/*")
     }
 }