Mercurial > repos > fubar > jbrowse2

comparison macros.xml @ 59:f807e219cec3 draft

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planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit faada92caf5aaabe58e52b161687a30d542a07b9
author fubar
date Fri, 22 Mar 2024 22:04:08 +0000
parents 460d5b6c5d98
children 81d535970196
comparison
equal deleted inserted replaced
58:0e592dcaeb7f 59:f807e219cec3
520 <xml name="input_conditional" token_label="Track Data" token_format="data"> 520 <xml name="input_conditional" token_label="Track Data" token_format="data">
521 <conditional name="useuri"> 521 <conditional name="useuri">
522 <param name="insource" type="select" label="Define track data as a history file or an internet URI" 522 <param name="insource" type="select" label="Define track data as a history file or an internet URI"
523 help="A public URI implies that all the associated tabix files are also in place. They are created for history files"> 523 help="A public URI implies that all the associated tabix files are also in place. They are created for history files">
524 <option value="history" selected="true">Track data from a history file</option> 524 <option value="history" selected="true">Track data from a history file</option>
525 <option value="uri" selected="true">Tabix data URI - index files must be available at corresponding URI</option> 525 <option value="uri" >Tabix data URI - index files must be available at corresponding URI</option>
526 </param> 526 </param>
527 <when value="history"> 527 <when value="history">
528 <param label="@LABEL@" format="@FORMAT@" name="annotation" multiple="True" optional="true" type="data" /> 528 <param label="@LABEL@" format="@FORMAT@" name="annotation" multiple="True" optional="true" type="data" />
529 </when> 529 </when>
530 <when value="uri"> 530 <when value="uri">
537 </sanitizer> 537 </sanitizer>
538 </param> 538 </param>
539 </when> 539 </when>
540 </conditional> 540 </conditional>
541 </xml> 541 </xml>
542 <xml name="pafref_conditional" token_label="Track Data" token_format="data">
543 <conditional name="pafuseuri">
544 <param name="insource" type="select" label="PAF reference data from a history file or an internet URI?"
545 help="A public URI implies that all the associated tabix files are also in place. They are created for history files">
546 <option value="history" selected="true">PAF genome reference data from a history file</option>
547 <option value="uri">PAF genome reference data from tabix data URI - index files must be available at corresponding URI</option>
548 </param>
549 <when value="history">
550 <repeat name="refgenomes" title="Add one or more comparison genomes used to make the PAF">
551 <param label="@LABEL@" format="@FORMAT@" name="annotation" multiple="True" optional="true" type="data" />
552 <param label="Short name for track display" name="annoname" type="text" >
553 <sanitizer invalid_char="_">
554 <valid initial="string.printable" >
555 <remove value="'" />
556 </valid>
557 </sanitizer>
558 </param>
559 </repeat>
560 </when>
561 <when value="uri">
562 <repeat name="refgenomes" title="Provide URI for a comparison genomesused to make the PAF">
563 <param label="@LABEL@" name="annotation" type="text" />
564 <param label="Short name for track display" name="annoname" type="text" >
565 <sanitizer invalid_char="_">
566 <valid initial="string.printable" >
567 <remove value="'" />
568 </valid>
569 </sanitizer>
570 </param>
571 </repeat>
572 </when>
573 </conditional>
574 </xml>
542 <xml name="citations"> 575 <xml name="citations">
543 <citations> 576 <citations>
544 <citation type="doi">10.1186/s13059-016-0924-1</citation> 577 <citation type="doi">10.1186/s13059-016-0924-1</citation>
545 <citation type="doi">10.1101/gr.094607.109</citation> 578 <citation type="doi">10.1101/gr.094607.109</citation>
546 </citations> 579 </citations>