Mercurial > repos > iuc > bigwig_outlier_bed

comparison bigwig_outlier_bed.xml @ 1:8377a6abb4da draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bigwig_outlier_bed commit 92ffe42a6ad6e81f3f157bbc9b942c000d450416
author iuc
date Sun, 21 Jul 2024 11:03:36 +0000
parents ebcd48f183b3
children 61946b8bd43b
comparison
equal deleted inserted replaced
0:ebcd48f183b3 1:8377a6abb4da
1 <tool name="Bigwig extremes to bed features" id="bigwig_outlier_bed" version="0.1.4" profile="22.05"> 1 <tool name="Bigwig extremes to bed features" id="bigwig_outlier_bed" version="@TOOL_VERSION@" profile="22.05">
2 <description>Writes high and low bigwig runs as features in a bed file</description> 2 <description>Writes high and low bigwig runs as features in a bed file</description>
3 <macros>
4 <token name="@TOOL_VERSION@">0.2.0</token>
5 <token name="@NUMPY_VERSION@">2.0.0</token>
6 <token name="@PYTHON_VERSION@">3.12.3</token>
7 </macros>
3 <edam_topics> 8 <edam_topics>
4 <edam_topic>topic_0157</edam_topic> 9 <edam_topic>topic_0157</edam_topic>
5 <edam_topic>topic_0092</edam_topic> 10 <edam_topic>topic_0092</edam_topic>
6 </edam_topics> 11 </edam_topics>
7 <edam_operations> 12 <edam_operations>
9 </edam_operations> 14 </edam_operations>
10 <xrefs> 15 <xrefs>
11 <xref type="bio.tools">bigtools</xref> 16 <xref type="bio.tools">bigtools</xref>
12 </xrefs> 17 </xrefs>
13 <requirements> 18 <requirements>
14 <requirement type="package" version="3.12.3">python</requirement> 19 <requirement type="package" version="@PYTHON_VERSION@">python</requirement>
15 <requirement type="package" version="2.0.0">numpy</requirement> 20 <requirement type="package" version="@NUMPY_VERSION@">numpy</requirement>
16 <requirement type="package" version="0.1.4">pybigtools</requirement> 21 <requirement type="package" version="@TOOL_VERSION@">pybigtools</requirement>
17 </requirements> 22 </requirements>
18 <required_files> 23 <required_files>
19 <include path="bigwig_outlier_bed.py"/> 24 <include path="bigwig_outlier_bed.py"/>
20 </required_files> 25 </required_files>
21 <version_command><![CDATA[python -c "import pybigtools; from importlib.metadata import version; print(version('pybigtools'))"]]></version_command> 26 <version_command><![CDATA[python -c "import pybigtools; from importlib.metadata import version; print(version('pybigtools'))"]]></version_command>
100 <param name="minwin" value="10"/> 105 <param name="minwin" value="10"/>
101 <param name="qhi" value="0.99"/> 106 <param name="qhi" value="0.99"/>
102 <param name="qlo" value="0.01"/> 107 <param name="qlo" value="0.01"/>
103 <param name="tableout" value="create"/> 108 <param name="tableout" value="create"/>
104 </test> 109 </test>
110 <test expect_num_outputs="2">
111 <output name="bedouthi" value="bedouthi_qlo_notset_sample" compare="diff" lines_diff="0"/>
112 <output name="tableoutfile" value="table_qlo_notset_sample" compare="diff" lines_diff="0"/>
113 <param name="outbeds" value="outhi"/>
114 <param name="bigwig" value="bigwig_sample"/>
115 <param name="minwin" value="10"/>
116 <param name="qhi" value="0.99"/>
117 <param name="qlo" value=""/>
118 <param name="tableout" value="create"/>
119 </test>
105 <test expect_num_outputs="3"> 120 <test expect_num_outputs="3">
106 <output name="bedouthi" value="bedouthi_sample" compare="diff" lines_diff="0"/> 121 <output name="bedouthi" value="bedouthi_sample" compare="diff" lines_diff="0"/>
107 <output name="bedoutlo" value="bedoutlo_sample" compare="diff" lines_diff="0"/> 122 <output name="bedoutlo" value="bedoutlo_sample" compare="diff" lines_diff="0"/>
108 <output name="tableoutfile" value="table_sample" compare="diff" lines_diff="0"/> 123 <output name="tableoutfile" value="table3_sample" compare="diff" lines_diff="0"/>
109 <param name="outbeds" value="outlohi"/> 124 <param name="outbeds" value="outlohi"/>
110 <param name="bigwig" value="bigwig_sample"/> 125 <param name="bigwig" value="bigwig_sample"/>
111 <param name="minwin" value="10"/> 126 <param name="minwin" value="1"/>
112 <param name="qhi" value="0.99"/> 127 <param name="qhi" value="0.9"/>
113 <param name="qlo" value="0.01"/> 128 <param name="qlo" value="0.1"/>
114 <param name="tableout" value="create"/> 129 <param name="tableout" value="create"/>
115 </test> 130 </test>
116 <test expect_num_outputs="4"> 131 <test expect_num_outputs="4">
117 <output name="bedouthilo" value="bedouthilo2_sample" compare="diff" lines_diff="0"/> 132 <output name="bedouthilo" value="bedouthilo2_sample" compare="diff" lines_diff="0"/>
118 <output name="bedoutlo" value="bedoutlo2_sample" compare="diff" lines_diff="0"/> 133 <output name="bedoutlo" value="bedoutlo2_sample" compare="diff" lines_diff="0"/>
119 <output name="bedouthi" value="bedouthi2_sample" compare="diff" lines_diff="0"/> 134 <output name="bedouthi" value="bedouthi2_sample" compare="diff" lines_diff="0"/>
120 <output name="tableoutfile" value="table2_sample" compare="diff" lines_diff="0"/> 135 <output name="tableoutfile" value="table2_sample" compare="diff" lines_diff="0"/>
121 <param name="outbeds" value="outall"/> 136 <param name="outbeds" value="outall"/>
122 <param name="bigwig" value="bigwig_sample,1.bigwig"/> 137 <param name="bigwig" value="bigwig_sample,1.bigwig"/>
123 <param name="minwin" value="10"/> 138 <param name="minwin" value="1"/>
124 <param name="qhi" value="0.99"/> 139 <param name="qhi" value="0.9"/>
125 <param name="qlo" value="0.01"/> 140 <param name="qlo" value="0.1"/>
126 <param name="tableout" value="create"/> 141 <param name="tableout" value="create"/>
127 </test> 142 </test>
128 </tests> 143 </tests>
129 <help><![CDATA[ 144 <help><![CDATA[
130 145