amend subst_params split_bam_by_chromosome_flags (no default) and spl…

…it_bam_by_chromosomes_cmd (use op:pack) to correctly implement split_bam_by_chromosome_flags as an optional parameter
wtsi-npg · Jan 27, 2015 · 08c58bb · 08c58bb
1 parent 9d655c7
commit 08c58bb
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/data/vtlib/split_by_chromosome.json b/data/vtlib/split_by_chromosome.json
@@ -50,7 +50,7 @@
 			"postproc":{"op":"concat","pad":""}
 		}
 	},
-	{ "id":"split_bam_by_chromosome_flags","default":"","comment":"specify as [S=Y,V=true] if ysplit" },
+	{ "id":"split_bam_by_chromosome_flags","comment":"specify as [S=Y,V=true] if ysplit" },
 	{
 		"id":"split_bam_by_chromosomes_cmd",
 		"required":"yes",
@@ -64,7 +64,7 @@
 				"MAX_RECORDS_IN_RAM=500000",
 				{"subst":"split_bam_by_chromosome_flags"}
 			],
-			"postproc":{"op":"noconcat", "pad":" "}
+			"postproc":{"op":"pack"}
 		}
 	}
 ],