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annotate orthologs/hmmsearch.xml @ 0:5b9a38ec4a39 draft default tip
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author | osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu> |
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date | Tue, 11 Mar 2014 12:19:13 -0700 |
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1 <tool id="phytab_hmmsearch" name="PHYTAB HMMSEARCH" version="3.0"> |
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2 <description>hmmsearch :: search profile(s) against a sequence database. Produces a phytab output.</description> |
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3 <requirements> |
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4 <requirement type="package">hmmsearch</requirement> |
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5 </requirements> |
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6 <command interpreter="python"> |
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7 hmmsearch.py -i $hmm -d $database > $hmmsearch_stdout 2>&1 |
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8 </command> |
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9 <inputs> |
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10 <param format="txt" name="hmm" type="data" label="HMM profiles" help="This should be a set of HMM models from hmmbuild"/> |
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11 <param format="txt" name="database" type="data" label="Sequence data" help="This should be a sequence database"/> |
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12 </inputs> |
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13 <outputs> |
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14 <data format="txt" name="hmmsearch_stdout" label="${tool.name} on ${on_string}: stdout" /> |
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15 <data format="txt" name="hmmsearch_results" label="${tool.name} on ${on_string}: results" from_work_dir="data/results.data" /> |
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16 </outputs> |
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17 <tests> |
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18 </tests> |
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19 <help> |
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20 **hmmsearch v3.0** |
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21 |
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22 Runs hmmsearch on HMM model data. |
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23 |
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24 See hmmsearch help: ftp://selab.janelia.org/pub/software/hmmer3/3.0/Userguide.pdf |
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25 </help> |
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26 </tool> |