@@ -1,8 +1,7 @@

 Package: gmapR

 Maintainer: Michael Lawrence <lawrence.michael@gene.com>

 License: Artistic-2.0

-Title: Provides convenience methods to work with GMAP and GSNAP from

-        within R

+Title: An R interface to the GMAP/GSNAP/GSTRUCT suite

 Type: Package

 Author: Cory Barr, Thomas Wu, Michael Lawrence

 Description: GSNAP and GMAP are a pair of tools to align short-read

@@ -10,7 +9,7 @@ Description: GSNAP and GMAP are a pair of tools to align short-read

         methods 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: 1.9.0

+Version: 1.9.1

 Depends: R (>= 2.15.0), methods, GenomeInfoDb (>= 1.1.3),

         GenomicRanges (>= 1.17.12)

 Imports: S4Vectors, IRanges, Rsamtools (>= 1.17.8), rtracklayer (>= 1.25.5),

@@ -107,7 +107,7 @@ flyGG <- GmapGenome(genome = "dm3",

                     directory = path.expand("/usr/share/gmap"))

 ##create a GmapGenome from a FASTA file

-fa <- system.file("extdata/hg19.MT.fasta", package="gmapR")

+fa <- system.file("extdata/hg19.p53.fasta", package="gmapR")

 fastaFile <- rtracklayer::FastaFile(fa)

 gmapGenome <- GmapGenome(fastaFile, create=TRUE)

 }