Mercurial > repos > nml > snv_matrix
annotate snv_matrix.xml @ 0:317ba2ee501d draft
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
author | nml |
---|---|
date | Tue, 27 Aug 2019 12:33:00 -0400 |
parents | |
children | 4d3e3d7aa0c4 |
rev | line source |
---|---|
0
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
1 <tool id="snvmatrix" name="SNV Matrix" version ="1.8.2"> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
2 <description>Create SNV matrix from Phylip file</description> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
3 <requirements> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
4 <requirement type="package" version="1.8.2">snvphyl-tools</requirement> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
5 </requirements> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
6 <command detect_errors="exit_code"> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
7 snv_matrix.pl $phylip |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
8 -o $out |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
9 </command> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
10 <inputs> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
11 <param name="phylip" type="data" label="Phylip file" format="phylip"/> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
12 </inputs> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
13 <outputs> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
14 <data format="tabular" name="out"/> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
15 </outputs> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
16 <tests> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
17 <test> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
18 <param name="phylip" value="snvalign-13.phy"/> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
19 <output name="out" file="snvalign-13.phy.out"/> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
20 </test> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
21 </tests> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
22 |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
23 <help> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
24 What it does |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
25 ============ |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
26 |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
27 Create SNV matrix from Phylip file format |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
28 |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
29 |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
30 Usage |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
31 ===== |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
32 |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
33 **Parameters** |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
34 - Phylip file: Phylogenetic file (.ph, .phy) |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
35 |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
36 </help> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
37 <citations> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
38 </citations> |
317ba2ee501d
"planemo upload for repository https://github.com/phac-nml/snvphyl-galaxy commit 90a172f1fc12b9c4d73f4c924a8c0c5a559589d0"
nml
parents:
diff
changeset
|
39 </tool> |