Mercurial > repos > iuc > qiime_split_libraries

comparison split_libraries.xml @ 7:cef6718b7652 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/qiime/ commit 358f82bc5a70186b8fc917fe0f5323a330051b8e
author iuc
date Tue, 30 Apr 2019 08:50:18 -0400
parents 553eccf3df81
children a54ce57d1477
comparison
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6:837ea0956a81 7:cef6718b7652
108 </inputs> 108 </inputs>
109 <outputs> 109 <outputs>
110 <data name="sequences" format="fasta" from_work_dir="split_libraries/*.fna" label="${tool.name} on ${on_string}: sequences"/> 110 <data name="sequences" format="fasta" from_work_dir="split_libraries/*.fna" label="${tool.name} on ${on_string}: sequences"/>
111 <data name="log" format="txt" from_work_dir="split_libraries/split_library_log.txt" label="${tool.name} on ${on_string}: log"/> 111 <data name="log" format="txt" from_work_dir="split_libraries/split_library_log.txt" label="${tool.name} on ${on_string}: log"/>
112 <data name="histograms" format="txt" from_work_dir="split_libraries/histograms.txt" label="${tool.name} on ${on_string}: histograms"/> 112 <data name="histograms" format="txt" from_work_dir="split_libraries/histograms.txt" label="${tool.name} on ${on_string}: histograms"/>
113 <data name="quality" format="qual,qual454,qualillumina,qualsolexa,qualsolid" from_work_dir="split_libraries/*.qual" label="${tool.name} on ${on_string}: quality"> 113 <data name="quality" format_source="qual" from_work_dir="split_libraries/*.qual" label="${tool.name} on ${on_string}: quality">
114 <filter>add_qual['record_qual_scores']!=""</filter> 114 <filter>'record_qual_scores' in add_qual and add_qual['record_qual_scores']</filter>
115 </data> 115 </data>
116 </outputs> 116 </outputs>
117 <tests> 117 <tests>
118 <test> 118 <test>
119 <param name="map" value="split_libraries/mapping_file.txt"/> 119 <param name="map" value="split_libraries/mapping_file.txt"/>
120 <param name="fasta" value="split_libraries/reads_1.fna,split_libraries/reads_2.fna"/> 120 <param name="fasta" value="split_libraries/reads_1.fna,split_libraries/reads_2.fna"/>
121 <param name="add_qual_test" value="true"/> 121 <param name="add_qual_test" value="true"/>
122 <param name="qual" value="split_libraries/reads_1.qual,split_libraries/reads_2.qual"/> 122 <param name="qual" ftype="qualillumina" value="split_libraries/reads_1.qual,split_libraries/reads_2.qual"/>
123 <param name="min_qual_score" value="25"/> 123 <param name="min_qual_score" value="25"/>
124 <param name="qual_score_window" value="0"/> 124 <param name="qual_score_window" value="0"/>
125 <param name="discard_bad_windows" value=""/> 125 <param name="discard_bad_windows" value=""/>
126 <param name="record_qual_scores" value="--record_qual_scores"/> 126 <param name="record_qual_scores" value="--record_qual_scores"/>
127 <param name="min_seq_length" value="200" /> 127 <param name="min_seq_length" value="200" />
148 <has_text text="bc_diffs" /> 148 <has_text text="bc_diffs" />
149 </assert_contents> 149 </assert_contents>
150 </output> 150 </output>
151 <output name="log" file="split_libraries/split_library_log"/> 151 <output name="log" file="split_libraries/split_library_log"/>
152 <output name="histograms" file="split_libraries/histograms.txt"/> 152 <output name="histograms" file="split_libraries/histograms.txt"/>
153 <output name="quality"> 153 <output name="quality" ftype="qualillumina">
154 <assert_contents> 154 <assert_contents>
155 <has_text text="PC.634_1" /> 155 <has_text text="PC.634_1" />
156 <has_text text="bc_diffs" /> 156 <has_text text="bc_diffs" />
157 </assert_contents> 157 </assert_contents>
158 </output> 158 </output>