Mercurial > repos > iuc > funannotate_predict

comparison funannotate_predict.xml @ 7:51b6ee65ef7f draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/funannotate commit 2589d2785ca90160a22a5fe14e03311e189ea51d
author iuc
date Thu, 13 Apr 2023 17:16:35 +0000
parents 7abc5f6dd595
children d6c7106b7b2e
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6:7abc5f6dd595 7:51b6ee65ef7f
369 <has_text text="Running Augustus gene prediction using genus_species parameters"/> 369 <has_text text="Running Augustus gene prediction using genus_species parameters"/>
370 <not_has_text text="Aligning transcript evidence to genome with minimap2"/> 370 <not_has_text text="Aligning transcript evidence to genome with minimap2"/>
371 <not_has_text text="Found 16 alignments, wrote GFF3 and Augustus hints to file"/> 371 <not_has_text text="Found 16 alignments, wrote GFF3 and Augustus hints to file"/>
372 <not_has_text text="Extracting hints from RNA-seq BAM file using bam2hints"/> 372 <not_has_text text="Extracting hints from RNA-seq BAM file using bam2hints"/>
373 <has_text text="Mapping 13 proteins to genome using diamond and exonerate"/> 373 <has_text text="Mapping 13 proteins to genome using diamond and exonerate"/>
374 <has_text text="Found 4 preliminary alignments --> aligning with exonerate"/> 374 <has_text text="Found 4 preliminary alignments with diamond"/>
375 </assert_stderr> 375 </assert_stderr>
376 </test> 376 </test>
377 377
378 <!-- pre-trained augustus --> 378 <!-- pre-trained augustus -->
379 <test> 379 <test>
434 <has_text text="Running Augustus gene prediction using fly parameters"/> 434 <has_text text="Running Augustus gene prediction using fly parameters"/>
435 <not_has_text text="Aligning transcript evidence to genome with minimap2"/> 435 <not_has_text text="Aligning transcript evidence to genome with minimap2"/>
436 <not_has_text text="Found 16 alignments, wrote GFF3 and Augustus hints to file"/> 436 <not_has_text text="Found 16 alignments, wrote GFF3 and Augustus hints to file"/>
437 <not_has_text text="Extracting hints from RNA-seq BAM file using bam2hints"/> 437 <not_has_text text="Extracting hints from RNA-seq BAM file using bam2hints"/>
438 <has_text text="Mapping 13 proteins to genome using diamond and exonerate"/> 438 <has_text text="Mapping 13 proteins to genome using diamond and exonerate"/>
439 <has_text text="Found 4 preliminary alignments --> aligning with exonerate"/> 439 <has_text text="Found 4 preliminary alignments with diamond"/>
440 </assert_stderr> 440 </assert_stderr>
441 </test> 441 </test>
442 442
443 <!-- bam and transcripts and proteins --> 443 <!-- bam and transcripts and proteins -->
444 <test> 444 <test>
507 <has_text text="Training Augustus using BUSCO gene models"/> 507 <has_text text="Training Augustus using BUSCO gene models"/>
508 <has_text text="Aligning transcript evidence to genome with minimap2"/> 508 <has_text text="Aligning transcript evidence to genome with minimap2"/>
509 <has_text text="Found 16 alignments, wrote GFF3 and Augustus hints to file"/> 509 <has_text text="Found 16 alignments, wrote GFF3 and Augustus hints to file"/>
510 <has_text text="Extracting hints from RNA-seq BAM file using bam2hints"/> 510 <has_text text="Extracting hints from RNA-seq BAM file using bam2hints"/>
511 <has_text text="Mapping 16 proteins to genome using diamond and exonerate"/> 511 <has_text text="Mapping 16 proteins to genome using diamond and exonerate"/>
512 <has_text text="Found 21 preliminary alignments --> aligning with exonerate"/> 512 <has_text text="Found 21 preliminary alignments with diamond"/>
513 </assert_stderr> 513 </assert_stderr>
514 <assert_command> 514 <assert_command>
515 <has_text text="--protein_evidence"/> 515 <has_text text="--protein_evidence"/>
516 </assert_command> 516 </assert_command>
517 </test> 517 </test>
581 <has_text text="Training Augustus using BUSCO gene models"/> 581 <has_text text="Training Augustus using BUSCO gene models"/>
582 <not_has_text text="Aligning transcript evidence to genome with minimap2"/> 582 <not_has_text text="Aligning transcript evidence to genome with minimap2"/>
583 <not_has_text text="Found 16 alignments, wrote GFF3 and Augustus hints to file"/> 583 <not_has_text text="Found 16 alignments, wrote GFF3 and Augustus hints to file"/>
584 <not_has_text text="Extracting hints from RNA-seq BAM file using bam2hints"/> 584 <not_has_text text="Extracting hints from RNA-seq BAM file using bam2hints"/>
585 <has_text text="Mapping 16 proteins to genome using diamond and exonerate"/> 585 <has_text text="Mapping 16 proteins to genome using diamond and exonerate"/>
586 <has_text text="Found 21 preliminary alignments --> aligning with exonerate"/> 586 <has_text text="Found 21 preliminary alignments with diamond"/>
587 </assert_stderr> 587 </assert_stderr>
588 <assert_command> 588 <assert_command>
589 <has_text text="--protein_evidence"/> 589 <has_text text="--protein_evidence"/>
590 </assert_command> 590 </assert_command>
591 </test> 591 </test>