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18
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1 <tool id="samtools_faidx" name="Faidx (SAMtools)" version="1.0.0">
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2 <description>Index FASTA file using samtools faidx command</description>
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30
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3 <requirements>
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4 <requirement type="package" version="1.2">samtools</requirement>
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5 </requirements>
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18
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6 <command>
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7 ln -s -f $input faidx_in.${input.ext} &&
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8
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9 samtools faidx
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10
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11 faidx_in.${input.ext} &&
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12 cp faidx_in.${input.ext}.fai $output
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13 </command>
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14 <inputs>
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15 <param name="input" type="data" label="FASTA input file" />
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16 </inputs>
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17 <outputs>
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18 <data name="output" label="${tool.name} on ${on_string}" />
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19 </outputs>
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20 <help>
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21 **About this tool**
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22
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23 **Samtools faidx**: Index reference sequence in the FASTA format or extract subsequence from indexed reference sequence. Outputs index of input file.
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24
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25 More info here: http://www.htslib.org/doc/samtools.html
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26 </help>
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27 </tool> |
