git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gmapR@71083 bc3139a8-67e5-0310-9ffc-ced21a209358
Michael Lawrence authored on 09/11/2012 12:55:36
| ... | ... |
@@ -41,7 +41,7 @@ setMethod("gsnap", c("character", "characterORNULL", "GsnapParam"),
|
| 41 | 41 |
gsnap_output <- GsnapOutput(path = output_path, |
| 42 | 42 |
version = gsnapVersion(), |
| 43 | 43 |
param = params) |
| 44 |
- asBam(gsnap_output) |
|
| 44 |
+ gsnap_output <- asBam(gsnap_output) |
|
| 45 | 45 |
if (consolidate) |
| 46 | 46 |
consolidate(gsnap_output) |
| 47 | 47 |
return(gsnap_output) |