@@ -10,7 +10,7 @@ Description: GSNAP and GMAP are a pair of tools to align short-read

     to work with GMAP and GSNAP from within R. In addition, it provides 

     methods to tally alignment results on a per-nucleotide basis using 

     the bam_tally tool.

-Version: 1.1.6

+Version: 1.1.7

 Depends: R (>= 2.15.0), methods, GenomicRanges

 Imports: IRanges, Rsamtools (>= 1.7.4), rtracklayer (>= 1.17.15), GenomicRanges,

          GenomicFeatures, Biostrings, VariantAnnotation, tools, Biobase

@@ -139,7 +139,8 @@ gmapGenomeDirectory <- GmapGenomeDirectory(gmapGenomePath, create = TRUE)

 gmapGenome <- GmapGenome(genome=Dmelanogaster,

                          directory = gmapGenomeDirectory,

                          name = "dm3",

-                         create = TRUE)

+                         create = TRUE,

+                         k = 12L)

 ##> gmapGenome

 ##GmapGenome object

 ##genome: dm3