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comparison moabs.xml @ 2:214874e24cd6 draft default tip

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"planemo upload for repository https://github.com/sunnyisgalaxy/moabs commit fc88d03b9c6c57265820c718d754817d3fb9e7d8"
author iuc
date Thu, 26 Aug 2021 11:45:34 +0000
parents 8c8cc81b34cd
children
comparison
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1:8c8cc81b34cd 2:214874e24cd6
285 <filter> "5" in output_selector </filter> 285 <filter> "5" in output_selector </filter>
286 <discover_datasets pattern="(?P&lt;designation&gt;g[12]\.G\.bed$)" ext='interval'/> 286 <discover_datasets pattern="(?P&lt;designation&gt;g[12]\.G\.bed$)" ext='interval'/>
287 </collection> 287 </collection>
288 </outputs> 288 </outputs>
289 <tests> 289 <tests>
290 <test> 290 <test expect_num_outputs="5">
291 <!-- test single-end reads --> 291 <!-- test single-end reads -->
292 <param name="reference_source_selector" value="history"/> 292 <param name="reference_source_selector" value="history"/>
293 <param name="ref_file" ftype="fasta" value="chr11.fa"/> 293 <param name="ref_file" ftype="fasta" value="chr11.fa"/>
294 <repeat name="g1_fastq"> 294 <repeat name="g1_fastq">
295 <conditional name="fastq_input"> 295 <conditional name="fastq_input">
337 <output_collection name="output_collection_bed" count="2"> 337 <output_collection name="output_collection_bed" count="2">
338 <element name="g1.G.bed" file="SE_g1.G.bed" ftype="interval" lines_diff="1"/> 338 <element name="g1.G.bed" file="SE_g1.G.bed" ftype="interval" lines_diff="1"/>
339 <element name="g2.G.bed" file="SE_g2.G.bed" ftype="interval" lines_diff="1"/> 339 <element name="g2.G.bed" file="SE_g2.G.bed" ftype="interval" lines_diff="1"/>
340 </output_collection> 340 </output_collection>
341 </test> 341 </test>
342 <test> 342 <test expect_num_outputs="3">
343 <!-- test paired-end reads --> 343 <!-- test paired-end reads -->
344 <param name="reference_source_selector" value="history"/> 344 <param name="reference_source_selector" value="history"/>
345 <param name="ref_file" ftype="fasta" value="seg.fa"/> 345 <param name="ref_file" ftype="fasta" value="seg.fa"/>
346 <repeat name="g1_fastq"> 346 <repeat name="g1_fastq">
347 <conditional name="fastq_input"> 347 <conditional name="fastq_input">
369 <param name="output_selector" value="1,2,3"/> 369 <param name="output_selector" value="1,2,3"/>
370 <output name="output1" file="PE_dmc_M2_g1.G.bed_vs_g2.G.bed.txt" ftype="interval" lines_diff="1"/> 370 <output name="output1" file="PE_dmc_M2_g1.G.bed_vs_g2.G.bed.txt" ftype="interval" lines_diff="1"/>
371 <output name="output2" file="PE_dmr_M2_g1.G.bed_vs_g2.G.bed.txt" ftype="interval" lines_diff="1"/> 371 <output name="output2" file="PE_dmr_M2_g1.G.bed_vs_g2.G.bed.txt" ftype="interval" lines_diff="1"/>
372 <output name="output3" file="PE_comp.g1.vs.g2.txt" ftype="interval" lines_diff="1"/> 372 <output name="output3" file="PE_comp.g1.vs.g2.txt" ftype="interval" lines_diff="1"/>
373 </test> 373 </test>
374 <test> 374 <test expect_num_outputs="3">
375 <!-- test paired collection --> 375 <!-- test paired collection -->
376 <param name="reference_source_selector" value="history"/> 376 <param name="reference_source_selector" value="history"/>
377 <param name="ref_file" ftype="fasta" value="seg.fa"/> 377 <param name="ref_file" ftype="fasta" value="seg.fa"/>
378 <repeat name="g1_fastq"> 378 <repeat name="g1_fastq">
379 <conditional name="fastq_input"> 379 <conditional name="fastq_input">
409 <param name="output_selector" value="1,2,3"/> 409 <param name="output_selector" value="1,2,3"/>
410 <output name="output1" file="PE_dmc_M2_g1.G.bed_vs_g2.G.bed.txt" ftype="interval" lines_diff="1"/> 410 <output name="output1" file="PE_dmc_M2_g1.G.bed_vs_g2.G.bed.txt" ftype="interval" lines_diff="1"/>
411 <output name="output2" file="PE_dmr_M2_g1.G.bed_vs_g2.G.bed.txt" ftype="interval" lines_diff="1"/> 411 <output name="output2" file="PE_dmr_M2_g1.G.bed_vs_g2.G.bed.txt" ftype="interval" lines_diff="1"/>
412 <output name="output3" file="PE_comp.g1.vs.g2.txt" ftype="interval" lines_diff="1"/> 412 <output name="output3" file="PE_comp.g1.vs.g2.txt" ftype="interval" lines_diff="1"/>
413 </test> 413 </test>
414 <test> 414 <test expect_num_outputs="3">
415 <!-- test data table reference --> 415 <!-- test data table reference -->
416 <param name="reference_source_selector" value="cached"/> 416 <param name="reference_source_selector" value="cached"/>
417 <param name="ref_file" value="chr11"/> 417 <param name="ref_file" value="chr11"/>
418 <repeat name="g1_fastq"> 418 <repeat name="g1_fastq">
419 <conditional name="fastq_input"> 419 <conditional name="fastq_input">