[2] | 1 | <tool id="substitutions1" name="Fetch substitutions " version="1.0.0"> |
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| 2 | <description> from pairwise alignments</description> |
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| 3 | <command interpreter="python"> |
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| 4 | substitutions.py |
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| 5 | $input |
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| 6 | $out_file1 |
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| 7 | </command> |
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| 8 | <inputs> |
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| 9 | <param format="maf" name="input" type="data" label="Select pair-wise alignment data"/> |
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| 10 | </inputs> |
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| 11 | <outputs> |
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| 12 | <data format="tabular" name="out_file1" metadata_source="input"/> |
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| 13 | </outputs> |
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| 14 | |
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| 15 | <tests> |
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| 16 | <test> |
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| 17 | <param name="input" value="Interval2Maf_pairwise_out.maf"/> |
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| 18 | <output name="out_file1" file="subs.out"/> |
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| 19 | </test> |
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| 20 | </tests> |
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| 21 | <help> |
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| 22 | |
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| 23 | .. class:: infomark |
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| 24 | |
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| 25 | **What it does** |
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| 26 | |
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| 27 | This tool takes a pairwise MAF file as input and fetches substitutions per alignment block. |
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| 28 | |
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| 29 | ----- |
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| 30 | |
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| 31 | .. class:: warningmark |
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| 32 | |
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| 33 | **Note** |
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| 34 | |
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| 35 | Any block/s not containing exactly two sequences, will be omitted. |
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| 36 | |
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| 37 | </help> |
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| 38 | </tool> |
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