Mercurial > repos > iuc > odgi_viz
comparison vis.xml @ 0:eeea2b5a81dd draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/odgi/ commit 6de23fe4201ec9c2b209f00ae0e19962c232828c"
author | iuc |
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date | Wed, 08 Apr 2020 12:12:55 -0400 |
parents | |
children | 536768de4748 |
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-1:000000000000 | 0:eeea2b5a81dd |
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1 <tool id="odgi_viz" name="odgi viz" version="@TOOL_VERSION@"> | |
2 <description>variation graph visualizations</description> | |
3 <macros> | |
4 <import>macros.xml</import> | |
5 </macros> | |
6 <expand macro="requirements"/> | |
7 <command detect_errors="exit_code"><![CDATA[ | |
8 odgi viz | |
9 -i '$input' | |
10 --out='$output' | |
11 -x $width | |
12 -y $height | |
13 #if str($path_height) | |
14 --path-height=$path_height | |
15 #end if | |
16 #if str($path_x_padding) | |
17 --path-x-padding=$path_x_padding | |
18 #end if | |
19 $path_per_row | |
20 #if str($link_path_pieces): | |
21 --link-path-pieces=$link_path_pieces | |
22 #end if | |
23 --threads=\${GALAXY_SLOTS:-1} | |
24 ]]></command> | |
25 <inputs> | |
26 <param name="input" type="data" format="odgi" label="odgi input file" /> | |
27 | |
28 <param argument="--width" type="integer" min="0" value="4000" label="Width in pixels of output image" /> | |
29 <param argument="--height" type="integer" min="0" value="500" label="Height in pixels of output image" /> | |
30 | |
31 <param argument="--path-height" type="integer" min="0" optional="true" label="Path display height" /> | |
32 <param argument="--path-x-padding" type="integer" min="0" optional="true" label="Path x padding" /> | |
33 <param argument="--path-per-row" type="boolean" truevalue="--path-per-row" falsevalue="" | |
34 label="Display a single path per row rather than packing them" /> | |
35 | |
36 <param argument="--link-path-pieces" type="float" optional="true" | |
37 label="Show thin links of this relative width to connect path pieces" /> | |
38 </inputs> | |
39 <outputs> | |
40 <data name="output" format="png" /> | |
41 </outputs> | |
42 <tests> | |
43 <test> | |
44 <param name="input" value="note5_out.og" /> | |
45 <param name="width" value="4000" /> | |
46 <param name="height" value="500" /> | |
47 <output name="output" file="note5.png" ftype="png" /> | |
48 </test> | |
49 </tests> | |
50 <help><![CDATA[ | |
51 optimized dynamic genome/graph implementation (odgi) | |
52 ---------------------------------------------------- | |
53 | |
54 variation graph visualizations (viz) | |
55 ]]></help> | |
56 <expand macro="citations" /> | |
57 </tool> |