Mercurial > repos > iuc > meryl_print
comparison print.xml @ 0:08b34a6c34ec draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meryl commit a95f5b04b1219489a327a622184633a561fe5ac0
author | iuc |
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date | Thu, 25 Apr 2024 21:00:59 +0000 |
parents | |
children | 4ffdd07cc5b6 |
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-1:000000000000 | 0:08b34a6c34ec |
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1 <tool id="meryl_print" name="Meryl" version="@TOOL_VERSION@+@GALAXY_TOOL_VERSION@@SUFFIX_VERSION@" profile="@PROFILE@"> | |
2 <description>get k-mer counts</description> | |
3 <macros> | |
4 <import>macros.xml</import> | |
5 </macros> | |
6 <expand macro="edam_ontology"/> | |
7 <xrefs> | |
8 <xref type="bio.tools">meryl</xref> | |
9 </xrefs> | |
10 <expand macro="requirements"/> | |
11 <version_command>meryl --version</version_command> | |
12 <command detect_errors="exit_code"><![CDATA[ | |
13 export GALAXY_MEMORY_GB=\$((\${GALAXY_MEMORY_MB:-8192}/1024)) && | |
14 mkdir -p ./temp_db/ && | |
15 tar -zxf $input_meryldb_02 -C ./temp_db/ && | |
16 mv ./temp_db/* tmp.meryl && | |
17 meryl print tmp.meryl > read-db.tabular | |
18 ]]></command> | |
19 <inputs> | |
20 <param name="input_meryldb_02" type="data" format="meryldb" label="Input meryldb"/> | |
21 </inputs> | |
22 <outputs> | |
23 <data name="read_db_print" format="tabular" from_work_dir="read-db.tabular"/> | |
24 </outputs> | |
25 <tests> | |
26 <test expect_num_outputs="1"> | |
27 <param name="input_meryldb_02" value="maternal.meryldb" ftype="meryldb"/> | |
28 <output name="read_db_print" file="output_25.read-db.tabular" sort="true"/> | |
29 </test> | |
30 </tests> | |
31 <help> | |
32 | |
33 .. class:: infomark | |
34 | |
35 **Purpose** | |
36 | |
37 Meryl is the k-mer counter. This tool gets the k-mer counts as a table. | |
38 | |
39 </help> | |
40 <expand macro="citations"/> | |
41 </tool> |