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comparison datasets_gene.xml @ 15:198c75abbf55 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_datasets commit 1b6341a0430757c07760af2115ae4d5e70f5903a
author iuc
date Mon, 04 Mar 2024 17:27:59 +0000
parents 75acf92c8fd5
children a6a475ed58cb
comparison
equal deleted inserted replaced
14:75acf92c8fd5 15:198c75abbf55
389 <has_n_lines min="30"/> 389 <has_n_lines min="30"/>
390 <has_n_columns n="8"/> 390 <has_n_columns n="8"/>
391 </assert_contents> 391 </assert_contents>
392 </output> 392 </output>
393 </test> 393 </test>
394
395 <!-- 7: datasets download gene accession NP_000483.3 --> 394 <!-- 7: datasets download gene accession NP_000483.3 -->
396 <test expect_num_outputs="1"> 395 <test expect_num_outputs="1">
397 <conditional name="query|subcommand"> 396 <conditional name="query|subcommand">
398 <param name="download_by" value="accession"/> 397 <param name="download_by" value="accession"/>
399 <conditional name="text_or_file"> 398 <conditional name="text_or_file">
436 <has_n_columns n="8"/> 435 <has_n_columns n="8"/>
437 </assert_contents> 436 </assert_contents>
438 </output> 437 </output>
439 </test> 438 </test>
440 439
441 <!-- 9: datasets download gene accession WP_004675351.1 + include_flanks_bp --> 440 <!-- 9: datasets download gene accession WP_004675351.1 + include_flanks_bp
442 <test expect_num_outputs="3"> 441 test broken at the moment https://github.com/ncbi/datasets/issues/328
442 -->
443 <test expect_failure="true"> <!-- expect_num_outputs="3" -->
443 <conditional name="query|subcommand"> 444 <conditional name="query|subcommand">
444 <param name="download_by" value="accession"/> 445 <param name="download_by" value="accession"/>
445 <conditional name="text_or_file"> 446 <conditional name="text_or_file">
446 <param name="text_or_file" value="text"/> 447 <param name="text_or_file" value="text"/>
447 <param name="accession" value="WP_004675351.1"/> 448 <param name="accession" value="WP_004675351.1"/>
452 <conditional name="kingdom_cond"> 453 <conditional name="kingdom_cond">
453 <param name="kingdom_sel" value="prok-gene"/> 454 <param name="kingdom_sel" value="prok-gene"/>
454 <param name="include" value="gene,protein"/> 455 <param name="include" value="gene,protein"/>
455 </conditional> 456 </conditional>
456 </section> 457 </section>
457 <output name="gene_data_report"> 458 <!-- <output name="gene_data_report">
458 <assert_contents> 459 <assert_contents>
459 <has_text text="glcE"/> 460 <has_text text="glcE"/>
460 <has_n_lines n="2"/> 461 <has_n_lines n="2"/>
461 <has_n_columns n="7"/> 462 <has_n_columns n="7"/>
462 </assert_contents> 463 </assert_contents>
468 </output> 469 </output>
469 <output name="protein_fasta"> 470 <output name="protein_fasta">
470 <assert_contents> 471 <assert_contents>
471 <has_text text=">"/> 472 <has_text text=">"/>
472 </assert_contents> 473 </assert_contents>
473 </output> 474 </output> -->
474 <assert_command> 475 <assert_command>
475 <has_text text="include-flanks-bp 100"/> 476 <has_text text="include-flanks-bp 100"/>
476 </assert_command> 477 </assert_command>
477 </test> 478 </test>
478 479