Mercurial > repos > devteam > fastq_filter
comparison fastq_filter.xml @ 3:10b75444feae draft
"planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_filter commit 31edb920789fbd080260f853bc856be72fa7cfa8"
| author | devteam |
|---|---|
| date | Fri, 01 Nov 2019 13:23:29 -0400 |
| parents | 06934412f56d |
| children | 81a9090d6df3 |
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| 2:06934412f56d | 3:10b75444feae |
|---|---|
| 1 <tool id="fastq_filter" name="Filter FASTQ" version="1.1.1"> | 1 <tool id="fastq_filter" name="Filter FASTQ" version="1.1.1"> |
| 2 <description>reads by quality score and length</description> | 2 <description>reads by quality score and length</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="1.1.1">galaxy_sequence_utils</requirement> | 4 <requirement type="package" version="1.1.1">galaxy_sequence_utils</requirement> |
| 5 </requirements> | 5 </requirements> |
| 6 <edam_topics> | |
| 7 <edam_topic>topic_0622</edam_topic> | |
| 8 </edam_topics> | |
| 9 <edam_operations> | |
| 10 <edam_operation>operation_3695</edam_operation> | |
| 11 </edam_operations> | |
| 6 <command><![CDATA[ | 12 <command><![CDATA[ |
| 7 gx-fastq-filter '$input_file' '$fastq_filter_file' '$output_file' '$output_file.files_path' '${input_file.extension[len( 'fastq' ):]}' | 13 gx-fastq-filter '$input_file' '$fastq_filter_file' '$output_file' '$output_file.files_path' '${input_file.extension[len( 'fastq' ):]}' |
| 8 ]]></command> | 14 ]]></command> |
| 9 <configfiles> | 15 <configfiles> |
| 10 <configfile name="fastq_filter_file"><![CDATA[ | 16 <configfile name="fastq_filter_file"><![CDATA[ |
| 239 <param name="left_column_offset" value="1"/> | 245 <param name="left_column_offset" value="1"/> |
| 240 <param name="right_column_offset" value="1"/> | 246 <param name="right_column_offset" value="1"/> |
| 241 <param name="score_operation" value="min"/> | 247 <param name="score_operation" value="min"/> |
| 242 <param name="score_comparison" value=">="/> | 248 <param name="score_comparison" value=">="/> |
| 243 <param name="score" value="1"/> | 249 <param name="score" value="1"/> |
| 244 <output name="output_file" file="sanger_full_range_original_sanger.fastqsanger" ftype="fastqsanger" /> | 250 <output name="output_file" file="sanger_full_range_original_sanger.fastqsanger" ftype="fastqsanger" /> |
| 245 </test> | 251 </test> |
| 246 <test> | 252 <test> |
| 247 <param name="input_file" value="sanger_full_range_original_sanger.fastqsanger" ftype="fastqsanger"/> | 253 <param name="input_file" value="sanger_full_range_original_sanger.fastqsanger" ftype="fastqsanger"/> |
| 248 <param name="min_size" value="0"/> | 254 <param name="min_size" value="0"/> |
| 249 <param name="max_size" value="0"/> | 255 <param name="max_size" value="0"/> |