Mercurial > repos > dereeper > roary_plots
comparison roary_plots.xml @ 3:e95344f6dfc5 draft default tip
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| author | dereeper |
|---|---|
| date | Fri, 12 Nov 2021 16:32:26 +0000 |
| parents | 997f4f276c1c |
| children |
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| 2:3f98630a0c20 | 3:e95344f6dfc5 |
|---|---|
| 6 <requirement type="package" version="1.20.2">numpy</requirement> | 6 <requirement type="package" version="1.20.2">numpy</requirement> |
| 7 <requirement type="package" version="1.2.4">pandas</requirement> | 7 <requirement type="package" version="1.2.4">pandas</requirement> |
| 8 <requirement type="package" version="0.11.1">seaborn</requirement> | 8 <requirement type="package" version="0.11.1">seaborn</requirement> |
| 9 </requirements> | 9 </requirements> |
| 10 | 10 |
| 11 <command interpreter="perl">roary_plots.sh $tree $input $heatmap | 11 <command>${__tool_directory__}/Roary/contrib/roary_plots/roary_plots.py --labels $tree $input ;cp pangenome_matrix.png $heatmap; cp -rf pangenome_frequency.png $frequency; cp -rf pangenome_pie.png $pie</command> |
| 12 </command> | |
| 13 | 12 |
| 14 | 13 |
| 15 <inputs> | 14 <inputs> |
| 16 <param format="tabular" name="input" type="data" label="Gene Presence Absence matrix"/> | 15 <param format="csv" name="input" type="data" label="Gene Presence Absence matrix"/> |
| 17 <param format="newick" name="tree" type="data" label="Newick"/> | 16 <param format="newick" name="tree" type="data" label="Newick"/> |
| 18 | 17 |
| 19 </inputs> | 18 </inputs> |
| 20 | 19 |
| 21 <outputs> | 20 <outputs> |
| 22 <data format="png" name="heatmap" label="Heatmap tree"/> | 21 <data format="png" name="heatmap" label="Pangenome matrix tree"/> |
| 22 <data format="png" name="frequency" label="Pangenome frequency"/> | |
| 23 <data format="png" name="pie" label="Pangenome pie"/> | |
| 23 </outputs> | 24 </outputs> |
| 24 | 25 |
| 25 <help> | 26 <help> |
| 26 For full documentation, please go to the Roary plots website : https://github.com/sanger-pathogens/Roary/tree/master/contrib/roary_plots | 27 For full documentation, please go to the Roary plots website : https://github.com/sanger-pathogens/Roary/tree/master/contrib/roary_plots |
| 27 | 28 |