annotate metaphlan2_macros.xml @ 2:ebb74774457e draft default tip

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit bfc25b2695b9689c60101f84162610194a33c886"
author iuc
date Fri, 19 Mar 2021 21:39:11 +0000
parents fdbd63e92b01
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
1 <?xml version="1.0"?>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
2 <macros>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
3 <token name="@WRAPPER_VERSION@">2.6.0</token>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
4 <xml name="requirements">
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
5 <requirements>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
6 <requirement type="package" version="@WRAPPER_VERSION@">metaphlan2</requirement>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
7 <yield/>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
8 </requirements>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
9 </xml>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
10 <xml name="stdio">
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
11 <stdio>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
12 <exit_code range="1:" level="fatal" description="" />
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
13 <regex match="ERROR"
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
14 source="stderr"
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
15 level="fatal"
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
16 description="" />
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
17 <regex match="WARNING"
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
18 source="stderr"
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
19 level="warning"
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
20 description="" />
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
21 </stdio>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
22 </xml>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
23 <xml name="citations">
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
24 <citations>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
25 <citation type="doi">10.1038/nmeth.3589</citation>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
26 </citations>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
27 </xml>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
28 <xml name="tax_lev">
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
29 <param argument="--tax_lev" type="select" label="Taxonomic level for the relative abundance output">
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
30 <option value="a" selected="true">All taxonomic levels</option>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
31 <option value="k">Kingdoms (Bacteria and Archaea) only</option>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
32 <option value="p">Phyla only</option>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
33 <option value="c">Classes only</option>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
34 <option value="o">Orders only</option>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
35 <option value="f">Families only</option>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
36 <option value="g">Genera only</option>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
37 <option value="s">Species only</option>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
38 </param>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
39 </xml>
fdbd63e92b01 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan2/ commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
iuc
parents:
diff changeset
40 </macros>