Mercurial > repos > greg > multigps
comparison multigps_macros.xml @ 5:7b15099378a7 draft
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| author | greg |
|---|---|
| date | Sat, 02 Jan 2016 14:07:37 -0500 |
| parents | |
| children | 32c8c38cd651 |
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| 4:32cff4d1d0ff | 5:7b15099378a7 |
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| 1 <?xml version='1.0' encoding='UTF-8'?> | |
| 2 <macros> | |
| 3 <xml name="requirements"> | |
| 4 <requirements> | |
| 5 <requirement type="package" version="4.11.0">meme</requirement> | |
| 6 <requirement type="package" version="2.14">biocbasics</requirement> | |
| 7 </requirements> | |
| 8 </xml> | |
| 9 <xml name="stdio"> | |
| 10 <stdio> | |
| 11 <exit_code range="1:"/> | |
| 12 <exit_code range=":-1"/> | |
| 13 <regex match="Error:"/> | |
| 14 <regex match="Exception:"/> | |
| 15 </stdio> | |
| 16 </xml> | |
| 17 <xml name="rd_cond"> | |
| 18 <conditional name="read_distribution_cond"> | |
| 19 <param name="read_distribution" type="select" label="Use read distribution file for this replicate?" help="Selecting No uses default distribution."> | |
| 20 <option value="no" selected="True">No</option> | |
| 21 <option value="yes">Yes</option> | |
| 22 </param> | |
| 23 <when value="yes"> | |
| 24 <param name="read_distribution_file" type="data" format="tabular" label="Read distribution file" /> | |
| 25 </when> | |
| 26 <when value="no" /> | |
| 27 </conditional> | |
| 28 </xml> | |
| 29 <xml name="frc_param"> | |
| 30 <param name="fixed_read_count" type="select" label="Use fixed per-base read count limit for this replicate?" help="Selecting No uses a global per-base limit that is estimated from a Poisson distribution."> | |
| 31 <option value="no" selected="True">No</option> | |
| 32 <option value="yes">Yes</option> | |
| 33 </param> | |
| 34 </xml> | |
| 35 <xml name="motif_finding_params"> | |
| 36 <param name="num_motifs" type="integer" min="0" value="3" label="Number of motifs MEME should find for each condition" /> | |
| 37 <param name="min_motif_width" type="integer" min="0" value="6" label="Minimum motif width for MEME" /> | |
| 38 <param name="max_motif_width" type="integer" min="0" value="16" label="Maximum motif width for MEME" /> | |
| 39 </xml> | |
| 40 <xml name="citations"> | |
| 41 <citations> | |
| 42 <citation type="doi">10.1371/journal.pcbi.1003501</citation> | |
| 43 </citations> | |
| 44 </xml> | |
| 45 </macros> |