Mercurial > repos > yating-l > hubarchivecreator

comparison hubArchiveCreator.xml @ 85:a65e52152476 draft default tip

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planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit 1a81ebd0ddea950b84af3fc830e9267a4814b29f
author yating-l
date Mon, 06 Nov 2017 13:13:01 -0500
parents cb62314a6297
children
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84:cb62314a6297 85:a65e52152476
457 <outputs> 457 <outputs>
458 <data format="trackhub" name="output"/> 458 <data format="trackhub" name="output"/>
459 </outputs> 459 </outputs>
460 460
461 <tests> 461 <tests>
462 <!-- Test with only the fasta file --> 462
463 <!-- Test with only the fasta file -->
463 <test> 464 <test>
464 <param name="genome_name" value="Dbia3"/> 465 <param name="genome_name" value="Dbia3"/>
465 <param name="fasta_file" value="common/dbia3.fa"/> 466 <param name="fasta_file" value="common/dbia3.fa"/>
466 <output name="output" file="only_genome/only_genome.html"> 467 <output name="output" file="only_genome/only_genome.html">
467 <!-- Use macro to check the whole common structure without repeated code --> 468 <!-- Use macro to check the whole common structure without repeated code -->
1372 <has_text text="iframeOptions"/> 1373 <has_text text="iframeOptions"/>
1373 </assert_contents> 1374 </assert_contents>
1374 </extra_files> 1375 </extra_files>
1375 <!-- check Trix index directory --> 1376 <!-- check Trix index directory -->
1376 <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigpsl.bb.ix" 1377 <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigpsl.bb.ix"
1377 value="trix_index/blat_out.ix" /> 1378 value="trix_index_files/blat_out.ix" />
1378 <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigpsl.bb.ixx" 1379 <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigpsl.bb.ixx"
1379 value="trix_index/blat_out.ixx" /> 1380 value="trix_index_files/blat_out.ixx" />
1380 </output> 1381 </output>
1381 </test> 1382 </test>
1382 1383
1383 <!-- Test TrixIndex for BLAST Alignment --> 1384 <!-- Test TrixIndex for BLAST Alignment -->
1384 <test> 1385 <test>
1422 <has_text text="iframeOptions"/> 1423 <has_text text="iframeOptions"/>
1423 </assert_contents> 1424 </assert_contents>
1424 </extra_files> 1425 </extra_files>
1425 <!-- check Trix index directory --> 1426 <!-- check Trix index directory -->
1426 <extra_files type="file" name="myHub/Dbia3/trix/BLAST_alignment_bigpsl.bb.ix" 1427 <extra_files type="file" name="myHub/Dbia3/trix/BLAST_alignment_bigpsl.bb.ix"
1427 value="trix_index/blast_out.ix" /> 1428 value="trix_index_files/blast_out.ix" />
1428 <extra_files type="file" name="myHub/Dbia3/trix/BLAST_alignment_bigpsl.bb.ixx" 1429 <extra_files type="file" name="myHub/Dbia3/trix/BLAST_alignment_bigpsl.bb.ixx"
1429 value="trix_index/blast_out.ixx" /> 1430 value="trix_index_files/blast_out.ixx" />
1430 </output> 1431 </output>
1431 </test> 1432 </test>
1432 1433
1433 <!-- Test TrixIndex for BigBed --> 1434 <!-- Test TrixIndex for BigBed -->
1434 <test> 1435 <test>
1442 <param name="BIGBED" value="big_bed/inputs/BLAT_alignment_bigbed" /> 1443 <param name="BIGBED" value="big_bed/inputs/BLAT_alignment_bigbed" />
1443 <param name="longLabel" value="bigBed" /> 1444 <param name="longLabel" value="bigBed" />
1444 <param name="track_color" value="#000000"/> 1445 <param name="track_color" value="#000000"/>
1445 <conditional name="add_trix_index"> 1446 <conditional name="add_trix_index">
1446 <param name="add_trix_index_selector" value="yes" /> 1447 <param name="add_trix_index_selector" value="yes" />
1447 <param name="trix_index" value="trix_index_files/blast_out.ix,trix_index_files/blast_out.ixx" /> 1448 <param name="trix_index" value="trix_index_files/blat_out.ix,trix_index_files/blat_out.ixx" />
1448 <param name="trix_id" value="name" /> 1449 <param name="trix_id" value="name" />
1449 </conditional> 1450 </conditional>
1450 </conditional> 1451 </conditional>
1451 </repeat> 1452 </repeat>
1452 </repeat> 1453 </repeat>
1462 <has_text text="searchTrix"/> 1463 <has_text text="searchTrix"/>
1463 </expand> 1464 </expand>
1464 1465
1465 <!-- check Trix index directory --> 1466 <!-- check Trix index directory -->
1466 <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigbed.bigbed.ix" 1467 <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigbed.bigbed.ix"
1467 value="trix_index/blat_out.ix" /> 1468 value="trix_index_files/blat_out.ix" />
1468 <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigbed.bigbed.ixx" 1469 <extra_files type="file" name="myHub/Dbia3/trix/BLAT_alignment_bigbed.bigbed.ixx"
1469 value="trix_index/blat_out.ixx" /> 1470 value="trix_index_files/blat_out.ixx" />
1470 </output> 1471 </output>
1471 </test> 1472 </test>
1472 1473
1473 </tests> 1474 </tests>
1474 1475