Merge pull request #20 from epruesse/master

fix use full relative path for reverse read file in bbmap launcher
HRGV · Jul 22, 2015 · 4cbd6c2 · 4cbd6c2
2 parents 1f50709 + 2d883a7
commit 4cbd6c2
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/phyloFlash.pl b/phyloFlash.pl
@@ -509,7 +509,7 @@ sub bbmap_fast_filter_run {
     if ($SEmode == 0) {
         $args =
         "  outm2=$libraryNAME.$readsf.SSU.2.fq "
-        . "pairlen=$maxinsert in2=$readsr";
+        . "pairlen=$maxinsert in2=$readsr_full";
     }
 
     run_prog("bbmap",