| Previous changeset 1:39cbc0965e07 (2016-04-25) Next changeset 3:7c1d80867e88 (2016-04-25) |
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Commit message:
planemo upload for repository https://github.com/portiahollyoak/Tools commit 132bb96bba8e7aed66a102ed93b7744f36d10d37-dirty |
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modified:
temp.xml |
| b |
| diff -r 39cbc0965e07 -r 7ac983da5ad8 temp.xml --- a/temp.xml Mon Apr 25 13:15:41 2016 -0400 +++ b/temp.xml Mon Apr 25 13:24:46 2016 -0400 |
| b |
| @@ -14,6 +14,7 @@ ln -f -s "$alignment.metadata.bam_index" "$alignment.element_identifier".bam.bai && ln -f -s "$alignment" "$alignment.element_identifier".bam && + samtools ; bash $__tool_directory__/scripts/TEMP_Insertion.sh -i "$alignment.element_identifier".bam -s $__tool_directory__/scripts -r "$consensus_te_seqs" -t "$bed_te_locations" -m 3 -f "$median_insertsize" -c \${GALAXY_SLOTS:-2} && bash $__tool_directory__/scripts/TEMP_Absence.sh -i "$alignment.element_identifier".bam -s $__tool_directory__/scripts -r "$bed_te_locations" -t "$reference2bit" -f 500 -c \${GALAXY_SLOTS:-2} && mv "$alignment.element_identifier".insertion.bp.bed $insertion_bed && |