comparison print.xml @ 0:08b34a6c34ec draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meryl commit a95f5b04b1219489a327a622184633a561fe5ac0
author iuc
date Thu, 25 Apr 2024 21:00:59 +0000
parents
children 4ffdd07cc5b6
comparison
equal deleted inserted replaced
-1:000000000000 0:08b34a6c34ec
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>