Mercurial > repos > mvdbeek > igv_take_screenshots
changeset 17:bfd72b90dbb2 draft
planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit 1ddb87e95baeea2a4ee9b95930da6e0927fb7ff7-dirty
| author | mvdbeek |
|---|---|
| date | Fri, 28 Jul 2017 13:19:00 -0400 |
| parents | 817db6799e96 |
| children | 46e42201f2e6 |
| files | igv_make_screenshots.xml |
| diffstat | 1 files changed, 5 insertions(+), 1 deletions(-) [+] |
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--- a/igv_make_screenshots.xml Fri Jul 28 12:56:38 2017 -0400 +++ b/igv_make_screenshots.xml Fri Jul 28 13:19:00 2017 -0400 @@ -4,7 +4,11 @@ <requirement type="package" version="2.3.93">igv</requirement> </requirements> <command detect_errors="exit_code"><![CDATA[ - ln -s '$genome_source.genome' genome.fa && + #if $genome_source.genome_source == 'history': + ln -s '$genome_source.genome' genome.fa && + #else: + ln -s '$genome_source.genome.fields.path' genome.fa && + #end if samtools faidx genome.fa && sed -i.bak -e "s|\"genome.fa\"|\"\$PWD/genome.fa\"|g" '$igv_session' && #for $i, $inputsection in enumerate($inputfiles):