Mercurial > repos > iuc > virannot_rps2tsv

comparison virAnnot_rps2tsv.xml @ 2:0028d42d75ec draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/virAnnot commit 7036ce0e06b6dc64332b1a5642fc58928523c5c6
author iuc
date Tue, 13 May 2025 11:51:26 +0000
parents 18a168ccd07e
children
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1:18a168ccd07e 2:0028d42d75ec
1 <tool id="virAnnot_rps2tsv" name="virAnnot Rps2tsv" version="1.1.0+galaxy0" profile="21.05"> 1 <tool id="virAnnot_rps2tsv" name="virAnnot Rps2tsv" version="@TOOL_VERSION@+galaxy0" profile="21.05">
2 <description>Convert xml rpstblast results to tab file with taxonomic informations</description> 2 <description>Convert xml rpstblast results to tab file with taxonomic informations</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="xrefs"/> 6 <expand macro="xrefs"/>
28 <test> 28 <test>
29 <param name="rps_xml" value="rps_test.xml"/> 29 <param name="rps_xml" value="rps_test.xml"/>
30 <param name="max_evalue" value="0.0001"/> 30 <param name="max_evalue" value="0.0001"/>
31 <output name="output" file="rps_test.tab"> 31 <output name="output" file="rps_test.tab">
32 <assert_contents> 32 <assert_contents>
33 <has_n_columns n="10" /> 33 <has_n_columns n="11" />
34 <has_n_lines n="5" /> 34 <has_n_lines n="5" />
35 <has_text text="pfam00680, RdRP_1" /> 35 <has_text text="pfam00680, RdRP_1" />
36 </assert_contents> 36 </assert_contents>
37 </output> 37 </output>
38 </test> 38 </test>
40 <help><![CDATA[ 40 <help><![CDATA[
41 41
42 This module takes as input rps XML file from rps motives annotation. 42 This module takes as input rps XML file from rps motives annotation.
43 The standard maximum evalue is 0.0001 [default value]. 43 The standard maximum evalue is 0.0001 [default value].
44 The expected result is a tabular file. See example: 44 The expected result is a tabular file. See example:
45 #query_id query_length cdd_id hit_id evalue startQ endQ frame description superkingdom 45 #query_id query_length cdd_id hit_id evalue startQ endQ frame description superkingdom pident
46 ds2020-267_120 339 pfam01333 gnl|CDD|366578 0.000848733 197 325 -3 pfam01333, Apocytochr_F_C, Apocytochrome F, C-terminal. This is a sub-family of cytochrome C. See pfam00034. Eukaryota(227);Bacteria(73); 46 ds2020-267_4 2297 pfam00680 gnl|CDD|279070 3.12197e-05 995 1873 -2 pfam00680, RdRP_1, RNA dependent RNA polymerase. Viruses(1);Riboviria(1);Orthornavirae(1);Pisuviricota(1) 16.986
47 ds2020-267_5 2029 pfam00680 gnl|CDD|279070 8.86955e-06 840 1706 3 pfam00680, RdRP_1, RNA dependent RNA polymerase. Viruses(1);Riboviria(1);Orthornavirae(1);Pisuviricota(1) 17.974
48 ds2020-267_6 1860 pfam02123 gnl|CDD|280316 1.27376e-17 1147 1764 -1 pfam02123, RdRP_4, Viral RNA-directed RNA-polymerase. This family includes RNA-dependent RNA polymerase proteins (RdRPs) from Luteovirus, Totivirus and Rotavirus. Viruses(1);Riboviria(1);Orthornavirae(1);Resentoviricetes(1) 23.671
49
47 50
48 ]]></help> 51 ]]></help>
49 <expand macro="citations" /> 52 <expand macro="citations" />
50 </tool> 53 </tool>