transfer i_data.ctab and e_data.ctab as output of workflow (all three…

… *ctab files required for input into ballgown)
feltus · d02f8abd024df19d9e37de8272059947d748812f · wpoehlm committed Apr 30, 2017 · Apr 30, 2017 · d02f8ab
1 parent cc989a8
commit d02f8abd024df19d9e37de8272059947d748812f
Unified Split

Showing with 6 additions and 1 deletion.

BIN tools/AutoADAG.pyc

+2 −0 tools/StringTie

+4 −1 tools/dax-level-2
diff --git a/tools/AutoADAG.pyc b/tools/AutoADAG.pyc
diff --git a/tools/StringTie b/tools/StringTie
@@ -43,3 +43,5 @@ stringtie *.bam -G $GFF3 -e -B  > /dev/null
 python ST_ttab_parse.py t_data.ctab > $BASE_NAME-merged_counts.fpkm
 
 mv t_data.ctab $BASE_NAME-t_data.ctab
+mv e_data.ctab $BASE_NAME-e_data.ctab
+mv i_data.ctab $BASE_NAME-i_data.ctab
diff --git a/tools/dax-level-2 b/tools/dax-level-2
@@ -273,7 +273,10 @@ def stringtie(task_files, dax, base_name, merged):
     f = File(base_name + "-merged_counts.fpkm")
     fpkm_files.append(f)
     t = File(base_name + "-t_data.ctab")
-
+    e = File(base_name + "-e_data.ctab")
+    i = File(base_name + "-i_data.ctab")
+    j.uses(e, link=Link.OUTPUT, transfer=True)
+    j.uses(i, link=Link.OUTPUT, transfer=True)
     j.uses(f, link=Link.OUTPUT, transfer=True)
     j.uses(t, link=Link.OUTPUT, transfer=True)
     dax.addJob(j)