1 new changeset in galaxy-central: http://bitbucket.org/galaxy/galaxy-central/changeset/0d30654210e9/ changeset: r5151:0d30654210e9 user: natefoo date: 2011-03-02 14:28:30 summary: Drop the ftype attribute from tophat test outputs affected #: 1 file (118 bytes) --- a/tools/ngs_rna/tophat_wrapper.xml Tue Mar 01 16:39:46 2011 -0500 +++ b/tools/ngs_rna/tophat_wrapper.xml Wed Mar 02 08:28:30 2011 -0500 @@ -412,8 +412,8 @@ <param name="sPaired" value="single" /><param name="input1" ftype="fastqsanger" value="tophat_in2.fastqsanger" /><param name="sSettingsType" value="preSet" /> - <output name="junctions" file="tophat_out1j.bed" ftype="bed" /> - <output name="accepted_hits" file="tophat_out1h.bam" compare="sim_size" ftype="bam" /> + <output name="junctions" file="tophat_out1j.bed" /> + <output name="accepted_hits" file="tophat_out1h.bam" compare="sim_size" /></test><!-- Test using test data: paired-end reads, index from history. --><test> @@ -428,8 +428,8 @@ <param name="input2" ftype="fastqsanger" value="tophat_in3.fastqsanger" /><param name="mate_inner_distance" value="20" /><param name="pSettingsType" value="preSet" /> - <output name="junctions" file="tophat_out2j.bed" ftype="bed" /> - <output name="accepted_hits" file="tophat_out2h.bam" compare="sim_size" ftype="bam" /> + <output name="junctions" file="tophat_out2j.bed" /> + <output name="accepted_hits" file="tophat_out2h.bam" compare="sim_size" /></test><!-- Test single-end reads with user-supplied reference fasta and full parameters --><test> @@ -469,10 +469,10 @@ <param name="min_coverage_intron" value="50" /><param name="max_coverage_intron" value="20000" /><param name="microexon_search" value="Yes" /> - <output name="insertions" file="tophat_out3i.bed" ftype="bed"/> - <output name="deletions" file="tophat_out3d.bed" ftype="bed"/> - <output name="junctions" file="tophat_out3j.bed" ftype="bed" /> - <output name="accepted_hits" file="tophat_out3h.bam" compare="sim_size" ftype="bam" /> + <output name="insertions" file="tophat_out3i.bed" /> + <output name="deletions" file="tophat_out3d.bed" /> + <output name="junctions" file="tophat_out3j.bed" /> + <output name="accepted_hits" file="tophat_out3h.bam" compare="sim_size" /></test><!-- Test paired-end reads with user-supplied reference fasta and full parameters --><test> @@ -512,8 +512,8 @@ <param name="min_coverage_intron" value="50" /><param name="max_coverage_intron" value="20000" /><param name="microexon_search" value="Yes" /> - <output name="junctions" file="tophat_out4j.bed" ftype="bed" /> - <output name="accepted_hits" file="tophat_out4h.bam" compare="sim_size" ftype="bam" /> + <output name="junctions" file="tophat_out4j.bed" /> + <output name="accepted_hits" file="tophat_out4h.bam" compare="sim_size" /></test></tests> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.