| Previous changeset 12:1bf4789584dc (2017-05-16) Next changeset 14:949f01671246 (2017-06-01) |
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Commit message:
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/trim_galore commit be11349529528f508eb05073396e80c3d1cbed4d |
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modified:
trim_galore.xml |
| b |
| diff -r 1bf4789584dc -r b6c00b82f623 trim_galore.xml --- a/trim_galore.xml Tue May 16 09:34:00 2017 -0400 +++ b/trim_galore.xml Thu Jun 01 08:59:04 2017 -0400 |
| [ |
| @@ -1,4 +1,4 @@ -<tool id="trim_galore" name="Trim Galore!" version="0.4.3.0" profile="17.01"> +<tool id="trim_galore" name="Trim Galore!" version="0.4.3.1" profile="17.01"> <!-- Wrapper compatible with Trim Galore! version 0.4.3 --> <description>Quality and adapter trimmer of reads</description> <macros> @@ -48,7 +48,7 @@ <version_command> trim_galore --version </version_command> - <command detect_errors="exit_code"><![CDATA[ + <command detect_errors="aggressive"><![CDATA[ #set compressed = 'no' #if $singlePaired.sPaired == "single": #if $singlePaired.input_singles.is_of_type("fastq.gz"): @@ -132,7 +132,6 @@ #end if --output_dir ./ - --suppress_warn #if $params.settingsType == "custom" and not $params.report: --no_report_file @@ -385,8 +384,8 @@ <param name="sPaired" value="paired" /> <param name="settingsType" value="custom" /> <param name="report" value="true" /> - <output name="trimmed_reads_pair1" file="paired_example_pair1_results2.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="0"/> - <output name="trimmed_reads_pair2" file="paired_example_pair2_results2.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="0"/> + <output name="trimmed_reads_pair1" file="paired_example_pair1_results2.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/> + <output name="trimmed_reads_pair2" file="paired_example_pair2_results2.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/> <output name="report_file" file="paired_example_results2gz.txt" ftype="txt" lines_diff="24" /> </test> @@ -431,13 +430,13 @@ <output name="report_file" file="paired_collection_example_results3gz.txt" ftype="txt" lines_diff="25" /> <output_collection name="trimmed_reads_paired_collection" type="paired"> - <element name="forward" file="paired_collection_example_pair1_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="0"/> - <element name="reverse" file="paired_collection_example_pair2_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="0"/> + <element name="forward" file="paired_collection_example_pair1_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/> + <element name="reverse" file="paired_collection_example_pair2_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/> </output_collection> <output_collection name="trimmed_reads_unpaired_collection" type="paired"> - <element name="forward" file="paired_collection_example_unpair1_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="0"/> - <element name="reverse" file="paired_collection_example_unpair2_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="0"/> + <element name="forward" file="paired_collection_example_unpair1_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/> + <element name="reverse" file="paired_collection_example_unpair2_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/> </output_collection> </test> </tests> |