Mercurial > repos > petr-novak > long_reads_sampling
comparison long_reads_sampling.xml @ 0:dd46956ff61f draft
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author | petr-novak |
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date | Fri, 08 Dec 2017 09:57:17 -0500 |
parents | |
children | 5596bafd2119 |
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-1:000000000000 | 0:dd46956ff61f |
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1 <tool id="long_reads_sampling" name="Create sample of long reads" version="0.1.0"> | |
2 <requirements> | |
3 <requirement type="package">biopython</requirement> | |
4 <requirement type="package">python3</requirement> | |
5 </requirements> | |
6 <command detect_errors="exit_code"><![CDATA[ | |
7 python3 $__tool_directory__/long_reads_sampling.py -i "$input1" -o "$output1" -l ${total_length} -s ${seed} | |
8 ]]></command> | |
9 <inputs> | |
10 <param type="data" name="input1" format="fasta" label="input sequence in fasta format"/> | |
11 <param name="total_length" type="integer" label="Total length of sampled sequences" value="10000" /> | |
12 <param name="seed" type="integer" label="seed for setting random number generator" value="123" /> | |
13 </inputs> | |
14 <outputs> | |
15 <data name="output1" format="fasta" /> | |
16 </outputs> | |
17 <tests> | |
18 <test> | |
19 <param name="input1" value="read_10k_ALL_oxford_nanopore_sample" /> | |
20 <param name="total_length" value="1000000" /> | |
21 <param name="seed" value="1234" /> | |
22 <output name="output1" file="sampled.fasta"/> | |
23 </test> | |
24 </tests> | |
25 <help><![CDATA[ | |
26 This tools is for random sampling of long reads te get specified total amount of data | |
27 ]]></help> | |
28 <citations> | |
29 </citations> | |
30 </tool> |