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comparison tests.xml @ 0:a2a40f3bfbbd draft default tip

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planemo upload for repository https://github.com/georgehe23/tools-iuc/tree/main/tools/pal2nal commit aed49bdc26e503297e1fc394ada087042dc23386
author iuc
date Sun, 09 Nov 2025 10:56:06 +0000
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-1:000000000000 0:a2a40f3bfbbd
1 <macros>
2 <xml name="tests">
3 <tests>
4 <test expect_num_outputs="1">
5 <param name="protein_alignment" value="inputs/test.aln" ftype="clustal" />
6 <param name="nucleotide_fastas" value="inputs/test.nuc" ftype="fasta" />
7 <param name="output_format" value="paml" />
8 <output name="output_file" file="outputs/expected_paml.paml" ftype="phylip" />
9 </test>
10 <test expect_num_outputs="1">
11 <param name="protein_alignment" value="inputs/test.aln" ftype="clustal" />
12 <param name="nucleotide_fastas" value="inputs/test.nuc" ftype="fasta" />
13 <param name="output_format" value="clustal" />
14 <output name="output_file" file="outputs/expected_clustal.aln" ftype="clustal" />
15 </test>
16 <test expect_num_outputs="1">
17 <param name="protein_alignment" value="inputs/test.aln" ftype="clustal" />
18 <param name="nucleotide_fastas" value="inputs/test.nuc" ftype="fasta" />
19 <param name="output_format" value="fasta" />
20 <param name="remove_gaps" value="true" />
21 <output name="output_file" file="outputs/expected_nogap.fasta" ftype="fasta" />
22 </test>
23 <test expect_num_outputs="1">
24 <param name="protein_alignment" value="inputs/test.aln" ftype="clustal" />
25 <param name="nucleotide_fastas" value="inputs/test.nuc" ftype="fasta" />
26 <param name="output_format" value="codon" />
27 <output name="output_file" file="outputs/expected_codon.txt" ftype="txt" />
28 </test>
29 <test expect_num_outputs="1">
30 <param name="protein_alignment" value="inputs/test.aln" ftype="clustal" />
31 <param name="nucleotide_fastas" value="inputs/test_bc070280.fasta,inputs/test_pseudogene.fasta" ftype="fasta" />
32 <param name="output_format" value="clustal" />
33 <output name="output_file" file="outputs/expected_clustal_multi.aln" ftype="clustal" />
34 </test>
35 <test expect_num_outputs="2">
36 <param name="protein_alignment" value="inputs/test.aln" ftype="clustal" />
37 <param name="nucleotide_fastas" value="inputs/test.nuc" ftype="fasta" />
38 <param name="output_format" value="clustal" />
39 <param name="show_only_blocks" value="true" />
40 <param name="remove_mismatches" value="true" />
41 <param name="genetic_code" value="2" />
42 <param name="html_output" value="true" />
43 <param name="suppress_stderr" value="true" />
44 <output name="output_file" file="outputs/expected_block_nomismatch.aln" ftype="clustal" />
45 <output name="html_output_file" file="outputs/expected_html.html" ftype="html" />
46 </test>
47 </tests>
48 </xml>
49 </macros>