Mercurial > repos > mvdbeek > bam_readtagger
comparison filter_insertions.xml @ 42:5b8781514bc1 draft
planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit 63220935ba51b0b5480da88017d58616bf671337-dirty
author | mvdbeek |
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date | Thu, 24 May 2018 11:51:27 -0400 |
parents | 4fdf606153df |
children | 6f9b1b81b593 |
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41:4fdf606153df | 42:5b8781514bc1 |
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5 </requirements> | 5 </requirements> |
6 <version_command>confirm_insertions --version</version_command> | 6 <version_command>confirm_insertions --version</version_command> |
7 <command detect_errors="aggressive"><![CDATA[ | 7 <command detect_errors="aggressive"><![CDATA[ |
8 ln -fs $putative_insertions putative_insertions.gff && | 8 ln -fs $putative_insertions putative_insertions.gff && |
9 ln -fs $all_insertions all_insertions.gff && | 9 ln -fs $all_insertions all_insertions.gff && |
10 ln -fs $all_controls all_controls_path.gff && | 10 #for i, p in enumerate($all_controls) |
11 ln -fs '$p' all_controls_${i}.gff && | |
12 #end for | |
11 confirm_insertions | 13 confirm_insertions |
12 --putative_insertions_path putative_insertions.gff | 14 --putative_insertions_path putative_insertions.gff |
13 --all_treatments_path all_insertions.gff | 15 --all_treatments_path all_insertions.gff |
14 #for p in $all_controls | 16 #for i, p in enumerate($all_controls) |
15 --all_controls_paths '$p' | 17 --all_controls_paths all_controls_${i}.gff |
16 #end for | 18 #end for |
17 --output_path '$output' | 19 --output_path '$output' |
18 $output_discard | 20 $output_discard |
19 ]]></command> | 21 ]]></command> |
20 <inputs> | 22 <inputs> |