Mercurial > repos > jdv > b2b_summarize_run

comparison summarize_run.xml @ 1:10c319d654df draft default tip

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"planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/b2b_utils commit 9bf8a0462bd44f170c0371b6cae67dd0c3b3da9f-dirty"
author jdv
date Tue, 28 Sep 2021 06:13:50 +0000
parents bd599efae04d
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0:bd599efae04d 1:10c319d654df
7 <requirements> 7 <requirements>
8 <!-- 8 <!--
9 <requirement type="package" version="0.003">b2b-utils</requirement> 9 <requirement type="package" version="0.003">b2b-utils</requirement>
10 --> 10 -->
11 <requirement type="package" version="0.7.17">bwa</requirement> 11 <requirement type="package" version="0.7.17">bwa</requirement>
12 <requirement type="package" version="0.006007">perl-biox-seq</requirement> 12 <requirement type="package" version="0.008002">perl-biox-seq</requirement>
13 <requirement type="package" version="1.23">perl-file-which</requirement> 13 <requirement type="package" version="1.23">perl-file-which</requirement>
14 </requirements> 14 </requirements>
15 15
16 <!-- ***************************************************************** --> 16 <!-- ***************************************************************** -->
17 17
19 19
20 <!-- ***************************************************************** --> 20 <!-- ***************************************************************** -->
21 21
22 <command detect_errors="aggressive"> 22 <command detect_errors="aggressive">
23 <![CDATA[ 23 <![CDATA[
24 24 perl $__tool_directory__/frag_lens
25 perl $__tool_directory__/summarize_run.pl 25 --forward "$in_filt1"
26 --reverse "$in_filt2"
27 --ref "$in_ref"
28 --threads "\${GALAXY_SLOTS:-1}"
29 --max_aln 100000
30 | perl $__tool_directory__/summarize_run.pl
26 --raw_1 $in_raw1 31 --raw_1 $in_raw1
27 --raw_2 $in_raw2 32 --raw_2 $in_raw2
28 --filt_1 $in_filt1 33 --filt_1 $in_filt1
29 --filt_2 $in_filt2 34 --filt_2 $in_filt2
30 --consensus $in_ref 35 --consensus $in_ref