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comparison isescan.xml @ 2:9e776e7fab4f draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/isescan commit 4c6ec7ff94aad26776df3964e7cec37058103721
author iuc
date Thu, 25 Jan 2024 16:32:04 +0000
parents 19f42b3ea391
children
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1:19f42b3ea391 2:9e776e7fab4f
25 label="Remove incomplete IS elements" 25 label="Remove incomplete IS elements"
26 help="Remove partial IS elements which include IS element with length > 400 or single copy IS element without perfect TIR"/> 26 help="Remove partial IS elements which include IS element with length > 400 or single copy IS element without perfect TIR"/>
27 <param name="log_activate" type="boolean" truevalue="true" falsevalue="false" checked="True" label="Keep the log file"/> 27 <param name="log_activate" type="boolean" truevalue="true" falsevalue="false" checked="True" label="Keep the log file"/>
28 </inputs> 28 </inputs>
29 <outputs> 29 <outputs>
30 <data format="txt" name="logfile" from_work_dir="results"> 30 <data format="txt" name="logfile" from_work_dir="results" label="${tool.name} on ${on_string}: logfile">
31 <filter> log_activate == True </filter> 31 <filter> log_activate == True </filter>
32 </data> 32 </data>
33 <data format="tabular" name="summary" from_work_dir="results/input.sum"/> 33 <data format="tabular" name="summary" from_work_dir="results/input.sum" label="${tool.name} on ${on_string}: tabular summary results"/>
34 <data format="tabular" name="all_results" from_work_dir="results/input.tsv"/> 34 <data format="tabular" name="all_results" from_work_dir="results/input.tsv" label="${tool.name} on ${on_string}: tabular results"/>
35 <data format="gff" name="annotation" from_work_dir="results/input.gff"/> 35 <data format="gff" name="annotation" from_work_dir="results/input.gff" label="${tool.name} on ${on_string}: results in gff format"/>
36 <data format="fasta" name="is_fasta" from_work_dir="results/input.is.fna"/> 36 <data format="fasta" name="is_fasta" from_work_dir="results/input.is.fna" label="${tool.name} on ${on_string}: IS nucleotide sequences"/>
37 <data format="fasta" name="orf_fna" from_work_dir="results/input.orf.fna"/> 37 <data format="fasta" name="orf_fna" from_work_dir="results/input.orf.fna" label="${tool.name} on ${on_string}: ORF nucleotide sequences"/>
38 <data format="fasta" name="orf_faa" from_work_dir="results/input.orf.faa"/> 38 <data format="fasta" name="orf_faa" from_work_dir="results/input.orf.faa" label="${tool.name} on ${on_string}: ORF amino acide sequences"/>
39 </outputs> 39 </outputs>
40 <tests> 40 <tests>
41 <test expect_num_outputs="7"> <!-- TEST_1 default parameters --> 41 <test expect_num_outputs="7"> <!-- TEST_1 default parameters -->
42 <param name="input_file" value="NC_012624.fna"/> 42 <param name="input_file" value="NC_012624.fna"/>
43 <output name="logfile" value="TEST_1/test_1.log" lines_diff="70"/> 43 <output name="logfile" value="TEST_1/test_1.log" lines_diff="70"/>