Mercurial > repos > petr-novak > long_reads_sampling
annotate long_reads_sampling.xml @ 3:9819570dc020 draft
planemo upload for repository https://github.com/kavonrtep/galaxy_tools commit 5cc98a80e4e99f2b4089b9a8de458035304a6319
author | petr-novak |
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date | Fri, 08 Dec 2023 11:24:06 +0000 |
parents | ccaedca97e5e |
children | 060fc04af21c |
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3
9819570dc020
planemo upload for repository https://github.com/kavonrtep/galaxy_tools commit 5cc98a80e4e99f2b4089b9a8de458035304a6319
petr-novak
parents:
2
diff
changeset
|
1 <tool id="long_reads_sampling" name="Create sample of long reads" version="0.1.1"> |
0 | 2 <requirements> |
3 <requirement type="package">biopython</requirement> | |
1 | 4 <requirement type="package" version="3.6" >python</requirement> |
0 | 5 </requirements> |
3
9819570dc020
planemo upload for repository https://github.com/kavonrtep/galaxy_tools commit 5cc98a80e4e99f2b4089b9a8de458035304a6319
petr-novak
parents:
2
diff
changeset
|
6 <required_files> |
9819570dc020
planemo upload for repository https://github.com/kavonrtep/galaxy_tools commit 5cc98a80e4e99f2b4089b9a8de458035304a6319
petr-novak
parents:
2
diff
changeset
|
7 <include type="literal" path="long2short.py"/> |
9819570dc020
planemo upload for repository https://github.com/kavonrtep/galaxy_tools commit 5cc98a80e4e99f2b4089b9a8de458035304a6319
petr-novak
parents:
2
diff
changeset
|
8 </required_files> |
0 | 9 <command detect_errors="exit_code"><![CDATA[ |
10 python3 $__tool_directory__/long_reads_sampling.py -i "$input1" -o "$output1" -l ${total_length} -s ${seed} | |
11 ]]></command> | |
12 <inputs> | |
13 <param type="data" name="input1" format="fasta" label="input sequence in fasta format"/> | |
14 <param name="total_length" type="integer" label="Total length of sampled sequences" value="10000" /> | |
15 <param name="seed" type="integer" label="seed for setting random number generator" value="123" /> | |
16 </inputs> | |
17 <outputs> | |
18 <data name="output1" format="fasta" /> | |
19 </outputs> | |
20 <tests> | |
21 <test> | |
22 <param name="input1" value="read_10k_ALL_oxford_nanopore_sample" /> | |
23 <param name="total_length" value="1000000" /> | |
1 | 24 <param name="seed" value="123" /> |
0 | 25 <output name="output1" file="sampled.fasta"/> |
26 </test> | |
27 </tests> | |
28 <help><![CDATA[ | |
29 This tools is for random sampling of long reads te get specified total amount of data | |
30 ]]></help> | |
31 <citations> | |
32 </citations> | |
33 </tool> |