Mercurial > repos > kkonganti > cfsan_centriflaken

comparison cfsan_centriflaken.xml @ 1:e0d902b50cff

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"planemo upload"
author kkonganti
date Mon, 27 Jun 2022 16:00:59 -0400
parents 77494b0fa3c7
children 29a590703d3e
comparison
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0:77494b0fa3c7 1:e0d902b50cff
11 ln -sf '$input' './cpipes-input/${input.element_identifier}'; 11 ln -sf '$input' './cpipes-input/${input.element_identifier}';
12 #end for 12 #end for
13 pwd_path=\$(pwd) 13 pwd_path=\$(pwd)
14 $__tool_directory__/0.2.1/cpipes 14 $__tool_directory__/0.2.1/cpipes
15 #if (reads.type == "long"): 15 #if (reads.type == "long"):
16 --pipeline $pipeline 16 --pipeline centriflaken
17 #else: 17 #else:
18 --pipeline $pipeline 18 --pipeline centriflaken_hy
19 #end if 19 #end if
20 --input \${pwd_path}/cpipes-input 20 --input \${pwd_path}/cpipes-input
21 --output \${pwd_path}/cpipes-output 21 --output \${pwd_path}/cpipes-output
22 #if ($reads_lib.paired_end == "true"): 22 #if ($reads_lib.paired_end == "true"):
23 --fq_single_end false 23 --fq_single_end false