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comparison getfastaBed.xml @ 64:f6c88d2e9ae5 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 73ebd55430874a3c1483b6dd6cce0482175482f9
author iuc
date Fri, 21 Feb 2025 21:38:34 +0000
parents 9f6bd4c9479f
children
comparison
equal deleted inserted replaced
63:7411007544bf 64:f6c88d2e9ae5
1 <tool id="bedtools_getfastabed" name="bedtools getfasta" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@"> 1 <tool id="bedtools_getfastabed" name="bedtools getfasta" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
2 <description>use intervals to extract sequences from a FASTA file</description> 2 <description>use intervals to extract sequences from a FASTA file</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="bio_tools" /> 6 <expand macro="bio_tools" />
59 </data> 59 </data>
60 </outputs> 60 </outputs>
61 <tests> 61 <tests>
62 <test> 62 <test>
63 <param name="input" value="nucBed1.bed" ftype="bed" /> 63 <param name="input" value="nucBed1.bed" ftype="bed" />
64 <param name="fasta" value="nucBed1.fasta" ftype="fasta" /> 64 <param name="fasta_source|fasta" value="nucBed1.fasta" ftype="fasta" />
65 <param name="tab" value="False" /> 65 <param name="tab" value="False" />
66 <param name="split" value="False" /> 66 <param name="split" value="False" />
67 <param name="nameOnly" value="False" /> 67 <param name="nameOnly" value="False" />
68 <output name="output" file="getfastaBed_result1.bed" ftype="fasta" /> 68 <output name="output" file="getfastaBed_result1.bed" ftype="fasta" />
69 </test> 69 </test>
70 <test> 70 <test>
71 <param name="input" value="nucBed1.bed" ftype="bed" /> 71 <param name="input" value="nucBed1.bed" ftype="bed" />
72 <param name="fasta" value="nucBed1.fasta" ftype="fasta" /> 72 <param name="fasta_source|fasta" value="nucBed1.fasta" ftype="fasta" />
73 <param name="tab" value="True" /> 73 <param name="tab" value="True" />
74 <param name="split" value="False" /> 74 <param name="split" value="False" />
75 <param name="nameOnly" value="False" /> 75 <param name="nameOnly" value="False" />
76 <output name="output" file="getfastaBed_result2.tabular" ftype="tabular" /> 76 <output name="output" file="getfastaBed_result2.tabular" ftype="tabular" />
77 </test> 77 </test>
78 <test> 78 <test>
79 <param name="input" value="nucBed1.bed" ftype="bed" /> 79 <param name="input" value="nucBed1.bed" ftype="bed" />
80 <param name="fasta" value="nucBed1.fasta" ftype="fasta" /> 80 <param name="fasta_source|fasta" value="nucBed1.fasta" ftype="fasta" />
81 <param name="tab" value="False" /> 81 <param name="tab" value="False" />
82 <param name="split" value="False" /> 82 <param name="split" value="False" />
83 <param name="name" value="True" /> 83 <param name="name" value="True" />
84 <output name="output" file="getfastaBed_result3.bed" ftype="fasta" /> 84 <output name="output" file="getfastaBed_result3.bed" ftype="fasta" />
85 </test> 85 </test>
86 <test> 86 <test>
87 <param name="input" value="nucBed2.bed" ftype="bed" /> 87 <param name="input" value="nucBed2.bed" ftype="bed" />
88 <param name="fasta" value="nucBed1.fasta" ftype="fasta" /> 88 <param name="fasta_source|fasta" value="nucBed1.fasta" ftype="fasta" />
89 <param name="tab" value="False" /> 89 <param name="tab" value="False" />
90 <param name="split" value="False" /> 90 <param name="split" value="False" />
91 <param name="nameOnly" value="True" /> 91 <param name="nameOnly" value="True" />
92 <output name="output" file="getfastaBed_result4.bed" ftype="fasta" /> 92 <output name="output" file="getfastaBed_result4.bed" ftype="fasta" />
93 </test> 93 </test>
94 <test> 94 <test>
95 <param name="input" value="nucBed2.bed" ftype="bed" /> 95 <param name="input" value="nucBed2.bed" ftype="bed" />
96 <param name="fasta_source_selector" value="preloaded"/> 96 <param name="fasta_source|fasta_source_selector" value="preloaded"/>
97 <param name="fasta_id" value="testid" /> 97 <param name="fasta_source|fasta_id" value="testid" />
98 <param name="tab" value="False" /> 98 <param name="tab" value="False" />
99 <param name="split" value="False" /> 99 <param name="split" value="False" />
100 <param name="nameOnly" value="True" /> 100 <param name="nameOnly" value="True" />
101 <output name="output" file="getfastaBed_result4.bed" ftype="fasta" /> 101 <output name="output" file="getfastaBed_result4.bed" ftype="fasta" />
102 </test> 102 </test>