Mercurial > repos > fubar > jbrowse2

comparison macros.xml @ 85:3b2ff9864995 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 264a3d6c7a29f396d359f33164ddf2cb1d9903f8-dirty
author fubar
date Tue, 09 Apr 2024 00:26:49 +0000
parents dff27c9f6d72
children 408781c080fc
comparison
equal deleted inserted replaced
84:5c295cc220ed 85:3b2ff9864995
304 <option value="compact">compact</option> 304 <option value="compact">compact</option>
305 <option value="reducedRepresentation">reducedRepresentation</option> 305 <option value="reducedRepresentation">reducedRepresentation</option>
306 <option value="collapse">collapse</option> 306 <option value="collapse">collapse</option>
307 </param> 307 </param>
308 <param label="Max height" name="max_height" type="integer" value="600" help="Maximum height that the track is permitted to reach in pixels."/> 308 <param label="Max height" name="max_height" type="integer" value="600" help="Maximum height that the track is permitted to reach in pixels."/>
309 </xml>
310
311 <xml name="track_styling_vgp">
312 <section name="jbstyle" title="JBrowse Styling Options [Advanced]" expanded="false">
313 <param label="Show labels" name="show_labels" type="boolean" checked="false" truevalue="true" falsevalue="false" />
314 <param label="Show descriptions" name="show_descriptions" type="boolean" checked="false" truevalue="true" falsevalue="false" />
315 <param name="display" type="select" label="Display style" help="How the track will be displayed by default">
316 <option value="LinearBasicDisplay" selected="true">LinearBasicDisplay</option>
317 <option value="LinearPileupDisplay">LinearPileupDisplay - good for dense tracks at scale</option>
318 <option value="LinearArcDisplay">LinearArcDisplay</option>
319 </param>
320 </section>
309 </xml> 321 </xml>
310 322
311 <xml name="track_styling_feature"> 323 <xml name="track_styling_feature">
312 <section name="jbstyle" title="JBrowse Styling Options [Advanced]" expanded="false"> 324 <section name="jbstyle" title="JBrowse Styling Options [Advanced]" expanded="false">
313 <conditional name="track_style"> 325 <conditional name="track_style">
553 help="Multiple references can be used for mashmap PAF. A URI source requires all the associated tabix index files to be in place."> 565 help="Multiple references can be used for mashmap PAF. A URI source requires all the associated tabix index files to be in place.">
554 <option value="history" selected="true">PAF reference comparison genome from a history file</option> 566 <option value="history" selected="true">PAF reference comparison genome from a history file</option>
555 <option value="uri">PAF reference comparison genome tabix .gz URI with index files at the corresponding URIs</option> 567 <option value="uri">PAF reference comparison genome tabix .gz URI with index files at the corresponding URIs</option>
556 </param> 568 </param>
557 <when value="history"> 569 <when value="history">
558 <repeat name="refgenomes" title="PAF reference comparison genome used to make the PAF" min="1"> 570 <param label="@LABEL@" format="@FORMAT@" name="annotation" type="data"
559 <param label="@LABEL@" format="@FORMAT@" name="annotation" multiple="True" optional="true" type="data" /> 571 help="Add all PAF reference comparison genomes used to make the PAF" multiple="true" />
560 <param label="Please provide a short name for track display" name="annoname" type="text"
561 help="Short names take less track space. No spaces allowed here">
562 <sanitizer invalid_char="_">
563 <valid initial="string.printable" >
564 <remove value=" " />
565 </valid>
566 </sanitizer>
567 </param>
568 </repeat>
569 </when> 572 </when>
570 <when value="uri"> 573 <when value="uri">
571 <repeat name="refgenomes" title="PAF reference comparison genome URI" min="1"> 574 <repeat name="refuri" title="PAF reference comparison genome URI" min="1">
572 <param label="@LABEL@" name="annotation" type="text" /> 575 <param label="@LABEL@" name="annotation" type="text" />
573 <param label="Short name for this reference" name="annoname" type="text" help="Short names take less track space"> 576 <param label="Short name for this reference" name="annoname" type="text" help="Short names take less track space">
574 <sanitizer invalid_char="_"> 577 <sanitizer invalid_char="_">
575 <valid initial="string.printable" > 578 <valid initial="string.printable" >
576 <remove value="'" /> 579 <remove value="'" />