Mercurial > repos > dfornika > cgview

comparison reformat_blastn_output.xml @ 6:ecd17b1142e6 draft

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planemo upload for repository https://github.com/dfornika/galaxy/tree/master/tools/cgview commit 423cf96266f6ac433052ff72edb1397502313010-dirty
author dfornika
date Mon, 08 Jul 2019 23:18:02 -0400
parents 1ede45efb8eb
children
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5:1ede45efb8eb 6:ecd17b1142e6
3 <requirements> 3 <requirements>
4 </requirements> 4 </requirements>
5 <command detect_errors="exit_code"> 5 <command detect_errors="exit_code">
6 <![CDATA[ 6 <![CDATA[
7 awk -F'\t' 'BEGIN {OFS = FS} $2 = $2 FS "match"' '${input}' | 7 awk -F'\t' 'BEGIN {OFS = FS} $2 = $2 FS "match"' '${input}' |
8 sed '1iquery_id\tmatch_id\tmatch_description\t%_identity\talignment_length\tmismatches\tgap_openings\tq_start\tq_end\ts_start\ts_end\tevalue\tbit_score' 8 sed '1iquery_id\tmatch_id\tmatch_description\t%_identity\talignment_length\tmismatches\tgap_openings\tq_start\tq_end\ts_start\ts_end\tevalue\tbit_score' |
9 sed '1i#PROGRAM=blastn'
9 > '${output}' 10 > '${output}'
10 ]]> 11 ]]>
11 </command> 12 </command>
12 <inputs> 13 <inputs>
13 <param name="input" type="data" format="tabular" label="Input" help=""/> 14 <param name="input" type="data" format="tabular" label="Input" help=""/>