| Previous changeset 29:1aac2a13842a (2022-03-20) Next changeset 31:585027e65f3b (2023-02-25) |
|
Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 0244aa33464cc27d1ce881cb310b8eda36e9a89c |
|
modified:
picard_CollectSequencingArtifactsMetrics.xml picard_ValidateSamFile.xml |
| b |
| diff -r 1aac2a13842a -r b502c227b5e6 picard_CollectSequencingArtifactsMetrics.xml --- a/picard_CollectSequencingArtifactsMetrics.xml Sun Mar 20 14:06:40 2022 +0000 +++ b/picard_CollectSequencingArtifactsMetrics.xml Mon Aug 22 09:56:00 2022 +0000 |
| b |
| @@ -2,7 +2,7 @@ <description>Collect metrics to quantify single-base sequencing artifacts</description> <macros> <import>picard_macros.xml</import> - <token name="@WRAPPER_VERSION@">1</token> + <token name="@WRAPPER_VERSION@">2</token> </macros> <expand macro="requirements"> <requirement type="package" version="3.4.1">r-base</requirement> @@ -31,7 +31,8 @@ INCLUDE_UNPAIRED='${unpaired}' MAXIMUM_INSERT_SIZE='${max_size}' MINIMUM_INSERT_SIZE='${min_size}' - MINIMUM_MAPPING_QUALITY='${minim_map_quality}'; + MINIMUM_MAPPING_QUALITY='${minim_map_quality}' + VALIDATION_STRINGENCY='${validation_stringency}'; ]]></command> <inputs> <param name='inputFile' format="sam,bam" type='data' label='SAM/BAM Input file'/> |
| b |
| diff -r 1aac2a13842a -r b502c227b5e6 picard_ValidateSamFile.xml --- a/picard_ValidateSamFile.xml Sun Mar 20 14:06:40 2022 +0000 +++ b/picard_ValidateSamFile.xml Mon Aug 22 09:56:00 2022 +0000 |
| b |
| @@ -2,7 +2,7 @@ <description>assess validity of SAM/BAM dataset</description> <macros> <import>picard_macros.xml</import> - <token name="@WRAPPER_VERSION@">1</token> + <token name="@WRAPPER_VERSION@">2</token> </macros> <expand macro="requirements" /> <stdio> @@ -45,6 +45,7 @@ REFERENCE_SEQUENCE="${reference_fasta_filename}" IGNORE_WARNINGS="${ignore_warnings}" IS_BISULFITE_SEQUENCED="${is_bisulfite_sequenced}" + VALIDATE_INDEX="${validate_index}" MAX_OPEN_TEMP_FILES=`ulimit -Sn` VERBOSITY=ERROR |