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1 <tool id="sampleinfo" name="Retrieve Sample Information">
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2 <description>for supported data formats.</description>
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3 <requirements>
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4 <requirement type="package" version="3.4.1">python3</requirement>
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5 <requirement type="package" version="0.1.3_9af04e0e9125">MiModD</requirement>
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6 </requirements>
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7 <command>
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8 mimodd info $ifile -o $outputfile --verbose
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9 </command>
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10
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11 <inputs>
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12 <param name="ifile" type="data" format="bam,sam,vcf,tabular" label="input file" />
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13 </inputs>
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14
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15 <outputs>
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16 <data name="outputfile" format="txt" label="Sample Info on ${on_string}"/>
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17 </outputs>
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18
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19 <help>
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20 .. class:: infomark
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21
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22 **What it does**
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23
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24 The tool inspects the input file and writes a report about the samples (and read groups) encoded in it.
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25
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26 It works with all file formats used and supported by MiModD that contain sample metadata, i.e. headered SAM/BAM files, vcf files with sample information and the cov files produced during Coverage Analysis.
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27
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28 </help>
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29 </tool>
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