Mercurial > repos > earlhaminst > blast_parser

comparison blast_parser.xml @ 3:70df762b48a8 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/blast_parser commit 32272744ad83a704fd427b48aae574496a279901-dirty
author earlhaminst
date Tue, 03 Oct 2017 04:51:45 -0400
parents 376ed15e0d27
children 363f3480622d
comparison
equal deleted inserted replaced
2:376ed15e0d27 3:70df762b48a8
1 <tool id="blast_parser" name="BLAST parser" version="0.1.1"> 1 <tool id="blast_parser" name="BLAST parser" version="0.1.2">
2 <description> 2 <description>
3 Convert 12- or 24-column BLAST output into 3-column hcluster_sg input 3 Convert 12- or 24-column BLAST output into 3-column hcluster_sg input
4 </description> 4 </description>
5 5
6 <command detect_errors="exit_code"> 6 <command detect_errors="exit_code">
7 <![CDATA[ 7 <![CDATA[
8 perl '$__tool_directory__/blast_parser.pl' 8 python '$__tool_directory__/blast_parser.py'
9 '$input' 9 -i '$input'
10 > '$output' 10 -o '$output'
11 #if $reciprocal
12 -r
13 #end if
11 ]]> 14 ]]>
12 </command> 15 </command>
13 16
14 <inputs> 17 <inputs>
15 <param name="input" type="data" format="tabular" label="Tabular data" help="BLAST 12 column tabular format data"/> 18 <param name="input" type="data" format="tabular" label="Tabular data" help="BLAST 12 column tabular format data"/>
19 <param name="reciprocal" type="boolean" checked="false" label="Reciprocal results" help="returns only reciprocal results"/>
16 </inputs> 20 </inputs>
17 21
18 <outputs> 22 <outputs>
19 <data name="output" format="tabular" label="$tool.name on ${on_string}" /> 23 <data name="output" format="tabular" label="$tool.name on ${on_string}" />
20 </outputs> 24 </outputs>
21 25
22 <tests> 26 <tests>
23 <test> 27 <test>
24 <param name="input" ftype="tabular" value="input.tabular" /> 28 <param name="input" ftype="tabular" value="input.tabular" />
29 <param name="reciprocal" value="false" />
25 <output name="output" file="output.tabular" /> 30 <output name="output" file="output.tabular" />
31 </test>
32 <test>
33 <param name="input" ftype="tabular" value="input.tabular" />
34 <param name="reciprocal" value="true" />
35 <output name="output" file="output2.tabular" />
26 </test> 36 </test>
27 </tests> 37 </tests>
28 <help> 38 <help>
29 <![CDATA[ 39 <![CDATA[
30 Simple tool to convert a 12- or 24-column BLAST output into a 3-column format (qseqid, sseqid, round(-1 * log10(evalue))) usable as input for the hcluster_sg tool. 40 Simple tool to convert a 12- or 24-column BLAST output into a 3-column format (qseqid, sseqid, round(-1 * log10(evalue)/2)) usable as input for the hcluster_sg tool.
31 ]]> 41 ]]>
32 </help> 42 </help>
33 <citations> 43 <citations>
34 </citations> 44 </citations>
35 </tool> 45 </tool>