comparison macros.xml @ 0:7d8cafa4d18c draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/velocyto commit d9beec424754fdf4f0b125552115521f9f536cb8
author iuc
date Sat, 13 May 2023 12:31:25 +0000
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-1:000000000000 0:7d8cafa4d18c
1
2 <macros>
3 <!-- The documentation says a v1.0 is in the works
4 but the repository has seen no changes for 3-4 years -->
5 <token name="@VERSION@">0.17.17</token>
6 <token name="@SAMTOOLS_OPTS@"><![CDATA[
7 --samtools-threads \${GALAXY_SLOTS:-1}
8 --samtools-memory \${GALAXY_MEMORY_MB:-100}
9 ]]></token>
10 <token name="@LOOMOUT@"><![CDATA[
11 -o "."
12 -e "output"
13 ]]></token>
14
15 <xml name="bcffile" >
16 <param argument="-b" type="data" format="tabular,txt" optional="true"
17 label="Barcodes file to filter BAM"
18 help="If -bcfile is not specified the file will be searched in the default position outputted by 'dropest_bc_correct'. Otherwise an error will be thrown" />
19 </xml>
20 <xml name="loomdtype" token_16_selected="true" token_32_selected="false" >
21 <param argument="-t" type="select" optional="true"
22 label="Datatype of Loom layers"
23 help="The dtype of the loom file layers - if more than 6000 molecules/reads per gene per cell are expected set uint32
24 to avoid truncation" >
25 <option value="uint16" selected="@16_SELECTED@">uint16</option>
26 <option value="uint32" selected="@32_SELECTED@">uint32</option>
27 </param>
28 </xml>
29 <xml name="repmask" >
30 <param argument="-m" type="data" format="gtf" optional="true"
31 label="Intervals to mask" />
32 </xml>
33 <xml name="notuniquemappings" >
34 <param argument="-M" type="boolean" truevalue="-M" falsevalue="" checked="false"
35 label="Consider not unique mappings?" help="(not recommended)" />
36 </xml>
37 <xml name="citations">
38 <citations>
39 <citation type="doi">10.1038/s41586-018-0414-6</citation>
40 </citations>
41 </xml>
42 <xml name="edam">
43 <edam_topics>
44 <edam_topic>topic_3512</edam_topic>
45 <edam_topic>topic_3320</edam_topic>
46 </edam_topics>
47 <edam_operations>
48 <edam_operation>operation_3800</edam_operation>
49 </edam_operations>
50 </xml>
51 <xml name="requirements">
52 <requirements>
53 <requirement type="package" version="@VERSION@" >velocyto.py</requirement>
54 </requirements>
55 </xml>
56 </macros>