Mercurial > repos > petr-novak > re_utils

comparison fastq_name_affixer.xml @ 9:c2c69c6090f0 draft

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author petr-novak
date Fri, 31 Jan 2020 06:55:23 -0500
parents e320ef2d105a
children 58807b35777a
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8:99569eccc583 9:c2c69c6090f0
3 <command interpreter="python"> 3 <command interpreter="python">
4 ${__tool_directory__}/name_affixer.py -f $input -p "$prefix" -s "$suffix" -n $nspace > $output 4 ${__tool_directory__}/name_affixer.py -f $input -p "$prefix" -s "$suffix" -n $nspace > $output
5 </command> 5 </command>
6 6
7 <inputs> 7 <inputs>
8 <param format="fastq" type="data" name="input" label="Choose your fastq file" /> 8 <param format="fastq" type="data" name="input" label="Choose your FASTQ file" />
9 <param name="prefix" type="text" size="10" value="" label="Prefix" help="Enter prefix which will be added to all sequences names" /> 9 <param name="prefix" type="text" size="10" value="" label="Prefix" help="Enter prefix which will be added to all sequences names" />
10 <param name="suffix" type="text" size="10" value="" label="Suffix" help="Enter suffix which will be added to all sequences names"/> 10 <param name="suffix" type="text" size="10" value="" label="Suffix" help="Enter suffix which will be added to all sequences names"/>
11 <param name="nspace" type="integer" size="10" value="0" min="0" max="1000" label="Number of spaces in name to ignore" help="Sequence name is a string before the first space. If you want name to include spaces in name, enter positive integer. All other characters beyond ignored spaces are omitted"/> 11 <param name="nspace" type="integer" size="10" value="0" min="0" max="1000" label="Number of spaces in sequence name to ignore" help="Sequence name is a string before the first space. If you want name to include spaces in name, enter positive integer. All other characters beyond ignored spaces are omitted"/>
12 </inputs> 12 </inputs>
13 13
14 14
15 <outputs> 15 <outputs>
16 <data format="fastq" name="output" label="fastq dataset ${input.hid} with modified sequence names" /> 16 <data format="fastq" name="output" label="FASTQ dataset ${input.hid} with modified sequence names" />
17 </outputs> 17 </outputs>
18 18
19 <help> 19 <help>
20 **What is does** 20 **What is does**
21 21