Mercurial > repos > iuc > raven

comparison raven.xml @ 1:f8564b2d7f63 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/raven commit cb3f04d604f2ce99f66b3d6e142d970063f9fd78"
author iuc
date Mon, 13 Sep 2021 19:42:19 +0000
parents 33b7d8481a76
children 3edba9afc9bc
comparison
equal deleted inserted replaced
0:33b7d8481a76 1:f8564b2d7f63
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="raven" name="Raven" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@"> 2 <tool id="raven" name="Raven" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
3 <description>De novo assembly of Oxford Nanopore Technologies data</description> 3 <description>De novo assembly of Oxford Nanopore Technologies data</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 7
53 <data name="out_fasta" format="fasta" label="${tool.name} on ${on_string} (FASTA)" /> 53 <data name="out_fasta" format="fasta" label="${tool.name} on ${on_string} (FASTA)" />
54 </outputs> 54 </outputs>
55 <tests> 55 <tests>
56 <test expect_num_outputs="2"> 56 <test expect_num_outputs="2">
57 <param name="input_reads" ftype="fastq.gz" value="ERA476754.fastq.gz"/> 57 <param name="input_reads" ftype="fastq.gz" value="ERA476754.fastq.gz"/>
58 <output name="out_gfa" file="raven_gfa_assembly.txt"> 58 <output name="out_gfa">
59 <assert_contents> 59 <assert_contents>
60 <has_n_lines n="2"/> 60 <has_n_lines n="2"/>
61 <has_text_matching expression="^S\tUtg52\t[ATCG]{30000,40000}\tLN:i:36[0-9]{3}\tRC:i:22\nS\tCtg54\t[ATCG]{9000,10000}\tLN:i:9361\tRC:i:4"/>
61 </assert_contents> 62 </assert_contents>
62 </output> 63 </output>
63 <output name="out_fasta" file="raven_assembly.fasta"> 64 <output name="out_fasta">
64 <assert_contents> 65 <assert_contents>
65 <has_n_lines n="2"/> 66 <has_n_lines n="2"/>
67 <has_text_matching expression="^>Utg52 LN:i:36[0-9]{3} RC:i:22 XO:i:0\n[ATCG]{30000,40000}$"/>
66 </assert_contents> 68 </assert_contents>
67 </output> 69 </output>
68 </test> 70 </test>
69 <test expect_num_outputs="1"> 71 <!-- <test expect_num_outputs="1">
70 <param name="input_reads" ftype="fastq.gz" value="ERA476754.fastq.gz"/> 72 <param name="input_reads" ftype="fastq.gz" value="ERA476754.fastq.gz"/>
71 <param name="graphical_fragment_assembly" value="false"/> 73 <param name="graphical_fragment_assembly" value="false"/>
72 <output name="out_fasta" file="raven_assembly.fasta"> 74 <output name="out_fasta">
73 <assert_contents> 75 <assert_contents>
74 <has_n_lines n="2"/> 76 <has_n_lines n="2"/>
77 <has_text_matching expression="^>Utg52 LN:i:36[0-9]{3} RC:i:22 XO:i:0\n[ATCG]{30000,40000}$"/>
75 </assert_contents> 78 </assert_contents>
76 </output> 79 </output>
77 </test> 80 </test> -->
78 </tests> 81 </tests>
79 <help><![CDATA[ 82 <help><![CDATA[
80 .. class:: infomark 83 .. class:: infomark
81 84
82 **What it does** 85 **What it does**