Mercurial > repos > bgruening > hicexplorer_hiccorrelate
comparison macros.xml @ 7:602a0c6f4bb0 draft
planemo upload for repository https://github.com/maxplanck-ie/HiCExplorer/tree/master/galaxy/wrapper/ commit 0456f085bac2c88b8cbddfcf12b02776d2a0d457
| author | bgruening |
|---|---|
| date | Wed, 07 Mar 2018 03:39:03 -0500 |
| parents | 8187f841afea |
| children | 2d8543aeeb65 |
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| 6:8187f841afea | 7:602a0c6f4bb0 |
|---|---|
| 1 <macros> | 1 <macros> |
| 2 <token name="@THREADS@">\${GALAXY_SLOTS:-4}</token> | 2 <token name="@THREADS@">\${GALAXY_SLOTS:-4}</token> |
| 3 <token name="@WRAPPER_VERSION@">2.0</token> | 3 <token name="@WRAPPER_VERSION@">2.1</token> |
| 4 | |
| 5 <token name="@USE_RANGE@"> | |
| 6 #if $use_range.select_use_range == "yes_use_range": | |
| 7 --range $range_min:$range_max | |
| 8 #end if | |
| 9 </token> | |
| 10 | |
| 4 <xml name="requirements"> | 11 <xml name="requirements"> |
| 5 <requirements> | 12 <requirements> |
| 6 <requirement type="package" version="@WRAPPER_VERSION@">hicexplorer</requirement> | 13 <requirement type="package" version="@WRAPPER_VERSION@">hicexplorer</requirement> |
| 7 <yield /> | 14 <yield /> |
| 8 </requirements> | 15 </requirements> |
| 16 </citations> | 23 </citations> |
| 17 </xml> | 24 </xml> |
| 18 | 25 |
| 19 <xml name="zMax"> | 26 <xml name="zMax"> |
| 20 <param argument="--zMax" name="zMax" type="float" optional="true" label="zMax for 3D plot"/> <!-- this should only be enabled when both or 3d is selected for param whatToShow --> | 27 <param argument="--zMax" name="zMax" type="float" optional="true" label="zMax for 3D plot"/> <!-- this should only be enabled when both or 3d is selected for param whatToShow --> |
| 28 </xml> | |
| 29 <xml name="use_range"> | |
| 30 <conditional name="use_range"> <!-- argparse specifies one argument of type min_range:max_range --> | |
| 31 <param name="select_use_range" type="select" label="Range restriction (in bp)" argument="--range"> | |
| 32 <option value="no_use_range">No restriction</option> | |
| 33 <option value="yes_use_range">Only consider counts within a range</option> | |
| 34 </param> | |
| 35 <when value="no_use_range"/> | |
| 36 <when value="yes_use_range"> | |
| 37 <expand macro='range' /> | |
| 38 </when> | |
| 39 </conditional> | |
| 40 </xml> | |
| 41 | |
| 42 <xml name="range"> | |
| 43 <param name="range_min" type="integer" value="" min="0"/> | |
| 44 <param name="range_max" type="integer" value="" min="0"/> | |
| 21 </xml> | 45 </xml> |
| 22 | 46 |
| 23 <xml name="colormap"> | 47 <xml name="colormap"> |
| 24 <param argument="--colorMap" name="colormap" type="select" optional="True" label="Color map to use for the heatmap" help=" Available color map names can be found here: https://matplotlib.org/examples/color/colormaps_reference.html"> | 48 <param argument="--colorMap" name="colormap" type="select" optional="True" label="Color map to use for the heatmap" help=" Available color map names can be found here: https://matplotlib.org/examples/color/colormaps_reference.html"> |
| 25 <option value="RdYlBu">RdYlBu</option> | 49 <option value="RdYlBu">RdYlBu</option> |
| 298 | 322 |
| 299 <xml name="pseudocount"> | 323 <xml name="pseudocount"> |
| 300 <param name="pseudocount" type="float" value="1" label="Pseudocount" help="Small number to avoid dividing by zero."/> | 324 <param name="pseudocount" type="float" value="1" label="Pseudocount" help="Small number to avoid dividing by zero."/> |
| 301 </xml> | 325 </xml> |
| 302 <xml name='matrix_h5_cooler_macro'> | 326 <xml name='matrix_h5_cooler_macro'> |
| 303 <param name='matrix_h5_cooler' type="data" format="h5,cool" | 327 <param name='matrix_h5_cooler' type="data" format="h5,cool" |
| 304 label="Matrix to compute on."/> | 328 label="Matrix to compute on"/> |
| 305 | |
| 306 </xml> | 329 </xml> |
| 307 <xml name='matrix_h5_cooler_multiple_macro'> | 330 <xml name='matrix_h5_cooler_multiple_macro'> |
| 308 <param name='matrix_h5_cooler_multiple' type="data" format="h5,cool" | 331 <param name='matrix_h5_cooler_multiple' type="data" format="h5,cool" |
| 309 label="Matrix to compute on." multiple="True"/> | 332 label="Matricies to compute on" multiple="true"/> |
| 310 </xml> | 333 </xml> |
| 311 <token name="@REFERENCES@"> | 334 <token name="@REFERENCES@"> |
| 312 | 335 |
| 313 .. class:: infomark | 336 .. class:: infomark |
| 314 | 337 |
| 554 <param name="title" type="text" optional="true" label="Plot title"/> | 577 <param name="title" type="text" optional="true" label="Plot title"/> |
| 555 </xml> | 578 </xml> |
| 556 | 579 |
| 557 <xml name="spacer_macro"> | 580 <xml name="spacer_macro"> |
| 558 <param name="spacer_width" type="float" value="" optional="True" | 581 <param name="spacer_width" type="float" value="" optional="True" |
| 559 label="Include spacer at the end of the track." help="Width of the spacer." /> | 582 label="Include spacer at the end of the track." help="Width of the spacer." /> |
| 560 </xml> | 583 </xml> |
| 561 <xml name="fontsize_macro"> | 584 <xml name="fontsize_macro"> |
| 562 <param name="fontsize" type="integer" value="" optional="True" label="Fontsize" /> | 585 <param name="fontsize" type="integer" value="" optional="True" label="Fontsize" /> |
| 563 </xml> | 586 </xml> |
| 564 </macros> | 587 </macros> |