Mercurial > repos > lldelisle > cooler_cload_tabix
comparison macros.xml @ 0:8745321ccc3e draft
planemo upload for repository https://github.com/lldelisle/tools-lldelisle/blob/master/tools/cooler/.shed.yml commit 67c1d2510db398d4f942bb59aca520fdf9cbe296
| author | lldelisle |
|---|---|
| date | Mon, 24 Oct 2022 15:19:04 +0000 |
| parents | |
| children | c639f60ae76a |
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| -1:000000000000 | 0:8745321ccc3e |
|---|---|
| 1 <macros> | |
| 2 <token name="@VERSION@">0.8.11</token> | |
| 3 <xml name="requirements"> | |
| 4 <requirements> | |
| 5 <requirement type="package" version="1.16">htslib</requirement> | |
| 6 <requirement type="package" version="3.7.0">h5py</requirement> | |
| 7 <requirement type="package" version="@VERSION@">cooler</requirement> | |
| 8 </requirements> | |
| 9 </xml> | |
| 10 <xml name="stdio"> | |
| 11 <stdio> | |
| 12 <!-- Anything other than zero is an error --> | |
| 13 <exit_code range="1:" /> | |
| 14 <exit_code range=":-1" /> | |
| 15 <!-- In case the return code has not been set propery check stderr too --> | |
| 16 <regex match="Error:" /> | |
| 17 <regex match="Exception:" /> | |
| 18 </stdio> | |
| 19 <version_command>cooler --version</version_command> | |
| 20 </xml> | |
| 21 <xml name="size_macro"> | |
| 22 <conditional name="size_source"> | |
| 23 <param name="size_source_selector" type="select" label="Choose the source for the chromosome sizes"> | |
| 24 <option value="cached">Locally cached</option> | |
| 25 <option value="history">History</option> | |
| 26 </param> | |
| 27 <when value="cached"> | |
| 28 <param name="fasta_cached" type="select" label="Fasta availables"> | |
| 29 <options from_data_table="fasta_indexes"> | |
| 30 <validator type="no_options" message="No cached fasta is available"/> | |
| 31 </options> | |
| 32 </param> | |
| 33 </when> | |
| 34 <when value="history"> | |
| 35 <param name="chromosomeSize" multiple="false" type="data" format="tabular" label="Select a file with the size of chromosome (One column with the chromosome names in the desired order, one column with the sizes)."/> | |
| 36 </when> | |
| 37 </conditional> | |
| 38 </xml> | |
| 39 <xml name="citation_cooler"> | |
| 40 <citations> | |
| 41 <citation type="doi">10.1093/bioinformatics/btz540</citation> | |
| 42 </citations> | |
| 43 </xml> | |
| 44 </macros> |