Mercurial > repos > mvdbeek > igv_take_screenshots

changeset 29:dd61761307ca draft

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planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit 0437e9e56f0af2ccfb5f119b0f290109807ed9b0-dirty
author mvdbeek
date Fri, 15 Jun 2018 13:33:51 -0400
parents d6541171175c
children 9d6b4d2ca187
files igv_make_screenshots.xml
diffstat 1 files changed, 1 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- a/igv_make_screenshots.xml	Fri Jun 15 13:11:56 2018 -0400
+++ b/igv_make_screenshots.xml	Fri Jun 15 13:33:51 2018 -0400
@@ -28,6 +28,7 @@
 #for $i, $inputsection in enumerate($inputfiles):
     @PATH@
     ln -fs '$inputsection.input' '$path' &&
+    sed -i.bak -e "s|\"$path\"|\"\$PWD/$path\"|g" '$igv_session' &&
     #if $inputsection.input.is_of_type('bam')
         ln -fs $inputsection.input.metadata.bam_index '$path'.bai &&
     #end if