Mercurial > repos > bgruening > salmonquantmerge

diff umiout.sh @ 9:58b9ef13fcca draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 1971e35a365a91ae36c990b374a552a46196e888
author bgruening
date Wed, 29 Oct 2025 10:45:39 +0000
parents 7c618ec039b8
children
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line diff
--- a/umiout.sh	Fri Jun 23 17:01:36 2023 +0000
+++ b/umiout.sh	Wed Oct 29 10:45:39 2025 +0000
@@ -1,11 +1,14 @@
 #!/usr/bin/bash
 
-mkdir fixed;
+set -e
+
+mkdir -p fixed;
 for file in ./umiout/*;
-do prefix="${file%.dot.gz}";
-prefix=${prefix/.\/umiout\//};
-gunzip $file;
-sed "s/umiout\/$prefix.dot.gz/$prefix/" umiout/$prefix.dot > fixed/$prefix.dot;
-dot -Tpdf fixed/$prefix.dot -o fixed/$prefix.pdf;
+do
+prefix="${file%.dot.gz}";
+prefix="${prefix/.\/umiout\//}";
+gunzip "$file";
+sed "s/umiout\/$prefix.dot.gz/$prefix/" "umiout/$prefix.dot" > "fixed/$prefix.dot";
+dot -Tpdf "fixed/$prefix.dot" -o "fixed/$prefix.pdf";
 done
 ls fixed