Mercurial > repos > iuc > meryl_histogram_kmers
diff histogram-kmers.xml @ 0:da960b744879 draft default tip
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 21:00:12 +0000 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/histogram-kmers.xml Thu Apr 25 21:00:12 2024 +0000 @@ -0,0 +1,40 @@ +<tool id="meryl_histogram_kmers" name="Meryl" version="@TOOL_VERSION@+@GALAXY_TOOL_VERSION@@SUFFIX_VERSION@" profile="@PROFILE@"> + <description>get k-mer frequency histogram</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="edam_ontology"/> + <xrefs> + <xref type="bio.tools">meryl</xref> + </xrefs> + <expand macro="requirements"/> + <version_command>meryl --version</version_command> + <command detect_errors="exit_code"><![CDATA[ + export GALAXY_MEMORY_GB=\$((\${GALAXY_MEMORY_MB:-8192}/1024)) && + mkdir -p ./temp_db/ && + tar -zxf $input_meryldb_02 -C ./temp_db/ && + mv ./temp_db/* tmp.meryl && + meryl histogram tmp.meryl > read-db.hist + ]]></command> + <inputs> + <param name="input_meryldb_02" type="data" format="meryldb" label="Input meryldb"/> + </inputs> + <outputs> + <data name="read_db_hist" format="tabular" from_work_dir="read-db.hist"/> + </outputs> + <tests> + <test expect_num_outputs="1"> + <param name="input_meryldb_02" value="read-db.meryldb" ftype="meryldb"/> + <output name="read_db_hist" file="output_24.read-db.hist"/> + </test> + </tests> + <help> + +.. class:: infomark + +**Purpose** + +Meryl is the k-mer counter. This tool determines a k-mer frequency histogram. + </help> + <expand macro="citations"/> +</tool>