details: http://www.bx.psu.edu/hg/galaxy/rev/5ffd16fb6a12 changeset: 3445:5ffd16fb6a12 user: Kelly Vincent kpvincent@bx.psu.edu date: Thu Feb 25 23:20:19 2010 -0500 description: Fixed dbkey's in sam_pileup and sam_to_bam tools in tests so they will pass
diffstat:
tools/samtools/sam_pileup.xml | 4 ++-- tools/samtools/sam_to_bam.xml | 4 ++-- 2 files changed, 4 insertions(+), 4 deletions(-)
diffs (42 lines):
diff -r 294b1283ea56 -r 5ffd16fb6a12 tools/samtools/sam_pileup.xml --- a/tools/samtools/sam_pileup.xml Thu Feb 25 14:59:43 2010 -0500 +++ b/tools/samtools/sam_pileup.xml Thu Feb 25 23:20:19 2010 -0500 @@ -82,7 +82,7 @@ --> <param name="reference" value="history" /> <param name="input1" value="sam_pileup_in1.bam" ftype="bam" /> - <param name="ownFile" value="chr_m.fasta" ftype="fasta" /> + <param name="ownFile" value="chr_m.fasta" ftype="fasta" dbkey="equCab2" /> <param name="lastCol" value="no" /> <param name="indels" value="no" /> <param name="mapCap" value="60" /> @@ -96,7 +96,7 @@ chr_m.fasta is the prefix of the index --> <param name="reference" value="indexed" /> - <param name="input1" value="sam_pileup_in1.bam" ftype="bam" dbkey="chrM" /> + <param name="input1" value="sam_pileup_in1.bam" ftype="bam" dbkey="equCab2" /> <param name="lastCol" value="no" /> <param name="indels" value="no" /> <param name="mapCap" value="60" /> diff -r 294b1283ea56 -r 5ffd16fb6a12 tools/samtools/sam_to_bam.xml --- a/tools/samtools/sam_to_bam.xml Thu Feb 25 14:59:43 2010 -0500 +++ b/tools/samtools/sam_to_bam.xml Thu Feb 25 23:20:19 2010 -0500 @@ -41,7 +41,7 @@ --> <param name="index_source" value="history" /> <param name="input1" value="3.sam" ftype="sam" /> - <param name="ref_file" value="chr_m.fasta" ftype="fasta" /> + <param name="ref_file" value="chr_m.fasta" ftype="fasta" dbkey="equCab2" /> <output name="output1" file="sam_to_bam_out1.bam" /> </test> <test> @@ -53,7 +53,7 @@ should be in the same directory --> <param name="index_source" value="cached" /> - <param name="input1" value="3.sam" ftype="sam" dbkey="chrM" /> + <param name="input1" value="3.sam" ftype="sam" dbkey="equCab2" /> <param name="output1" file="sam_to_bam_out2.bam" /> </test> </tests>