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Changeset 1:d3b1853c4efd (2023-01-13)

Previous changeset 0:0214b9ae8a6e (2022-08-29) Next changeset 2:ddff0f6d5740 (2023-06-08)

Commit message:
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2_core__tools commit 69da7976573cc07a363ac66bdacc9269d7cd3732

modified:
qiime2_core__tools__export.xml

diff -r 0214b9ae8a6e -r d3b1853c4efd qiime2_core__tools__export.xml
--- a/qiime2_core__tools__export.xml Mon Aug 29 20:37:34 2022 +0000
+++ b/qiime2_core__tools__export.xml Fri Jan 13 23:02:16 2023 +0000

[

b'@@ -1,21 +1,21 @@\n <?xml version=\'1.0\' encoding=\'utf-8\'?>\n \n \n-<tool name="qiime2 tools export" id="qiime2_core__tools__export" version="2022.8.1+dist.h91e3be72.2" profile="22.05" license="BSD-3-Clause">\n+<tool name="qiime2 tools export" id="qiime2_core__tools__export" version="2022.11.1+dist.h2bda5906.2" profile="22.05" license="BSD-3-Clause">\n <description>Export data from a QIIME 2 artifact</description>\n <requirements>\n- <container type="docker">quay.io/qiime2/core:2022.8</container>\n+ <container type="docker">quay.io/qiime2/core:2022.11</container>\n </requirements>\n- <command>q2galaxy run tools export \'$inputs\'</command>\n+ <command detect_errors="exit_code">q2galaxy run tools export \'$inputs\'</command>\n <configfiles>\n <inputs name="inputs" data_style="paths"/>\n </configfiles>\n@@ -44,6 +44,7 @@\n <option value="FeatureData__ob__AlignedRNASequence__cb__">FeatureData[AlignedRNASequence]</option>\n <option value="FeatureData__ob__AlignedSequence__cb__">FeatureData[AlignedSequence]</option>\n <option value="FeatureData__ob__BLAST6__cb__">FeatureData[BLAST6]</option>\n+ <option value="FeatureData__ob__DifferentialAbundance__cb__">FeatureData[DifferentialAbundance]</option>\n <option value="FeatureData__ob__Differential__cb__">FeatureData[Differential]</option>\n <option value="FeatureData__ob__Importance__cb__">FeatureData[Importance]</option>\n <option value="FeatureData__ob__PairedEndRNASequence__cb__">FeatureData[PairedEndRNASequence]</option>\n@@ -152,6 +153,12 @@\n <option value="BLAST6Format">BLAST6 Format</option>\n </param>\n </when>\n+ <when value="FeatureData__ob__DifferentialAbundance__cb__">\n+ <param name="output_format" type="select" label="QIIME 2 file format to convert to:">\n+ <option value="None" selected="true">export as is (no conversion)</option>\n+ <option value="DataLoafPackageDirFmt">Data Loaf Package Directory Format</option>\n+ </param>\n+ </when>\n <when value="FeatureData__ob__Differential__cb__">\n <param name="output_format" type="select" label="QIIME 2 file format to convert to:">\n <option value="None" selected="true">export as is (no conversion)</option>\n@@ -427,7 +434,7 @@\n </inputs>\n <outputs>\n <collection name="exported" type="list" label="${tool.name} on ${on_string} as ${fmt_peek}">\n- <filter>fmt_finder[\'output_format\'] == \'None\' and fmt_peek not in {\'NewickFormat\', \'DADA2StatsFormat\', \'AlignedProteinFASTAFormat\', \'QualityFilterStatsDirFmt\', \'ProbabilitiesFormat\', \'OrdinationFormat\', \'SingleLanePerSamplePairedEndFastqDirFmt\', \'EMPPairedEndDirFmt\', \'MultiplexedSingleEndBarcodeInSequenceDirFmt\', \'AlignedDNASequencesDirectoryFormat\', \'TSVTaxonomyDirectoryFormat\', \'AlignedRNAFASTAFormat\', \'MultiplexedPairedEndBarcodeInSequenceDirFmt\', \'BooleanSeriesFormat\', \'QualityFilterStatsFmt\', \'BIOMV210DirFmt\', \'EMPSingleEndDirFmt\', \'Bowtie2IndexDirFmt\', \'PlacementsFormat\', \'TrueTargetsDirectoryFormat\', \'AlignedRNASequencesDirectoryFormat\', \'ProbabilitiesDirectoryFormat\', \'ArtificialGroupingDirectoryFormat\', \'DifferentialDirectoryFormat\', \'AlignedDNAFASTAFormat\', \'LSMatFormat\', \'FastqGzFormat\', \'RNASequencesDirectoryFormat\', \'ProteinSequencesDirectoryFormat\', \'DADA2StatsDirFmt\', \'SeppReferenceDirFmt\', \'DNAFASTAFormat\', \'QIIME1DemuxDirFmt\', \'BooleanSeriesDirectoryFormat\', \'PairedRNASequencesD'..b'mt\' or (fmt_finder[\'output_format\'] == \'None\' and fmt_peek == \'DeblurStatsDirFmt\')</filter>\n <discover_datasets assign_primary_output="true" pattern="(?P<designation>stats)\\.(?P<ext>csv)" visible="true"/>\n@@ -817,73 +832,74 @@\n \n Additional formats without documentation:\n *****************************************\n- - AlignedRNASequencesDirectoryFormat\n+ - QIIME1DemuxDirFmt\n+ - ArtificialGroupingDirectoryFormat\n+ - DeblurStatsFmt\n+ - DADA2StatsFormat\n+ - ImportanceDirectoryFormat\n+ - BIOMV210Format\n+ - AlphaDiversityDirectoryFormat\n+ - AlignedDNAFASTAFormat\n+ - DataLoafPackageDirFmt\n - MultiplexedSingleEndBarcodeInSequenceDirFmt\n- - AlignedDNASequencesDirectoryFormat\n- - NewickFormat\n- - SeppReferenceDirFmt\n- - ProcrustesStatisticsDirFmt\n- - PairedRNASequencesDirectoryFormat\n- - BIOMV210DirFmt\n+ - QualityFilterStatsDirFmt\n+ - BLAST6Format\n+ - PairedDNASequencesDirectoryFormat\n - EMPPairedEndDirFmt\n- - DistanceMatrixDirectoryFormat\n- - AlphaDiversityDirectoryFormat\n- - OrdinationDirectoryFormat\n- - ArtificialGroupingFormat\n- - BLAST6Format\n- - RNASequencesDirectoryFormat\n- - ProbabilitiesFormat\n+ - NewickDirectoryFormat\n - PlacementsFormat\n- - DADA2StatsFormat\n- - SampleEstimatorDirFmt\n- - ImportanceFormat\n+ - FirstDifferencesDirectoryFormat\n - AlignedProteinFASTAFormat\n- - DNASequencesDirectoryFormat\n- - BIOMV210Format\n+ - BIOMV210DirFmt\n+ - DistanceMatrixDirectoryFormat\n - TSVTaxonomyDirectoryFormat\n- - QualityFilterStatsDirFmt\n- - SingleLanePerSampleSingleEndFastqDirFmt\n- - CasavaOneEightSingleLanePerSampleDirFmt\n+ - FirstDifferencesFormat\n+ - TrueTargetsDirectoryFormat\n+ - Bowtie2IndexDirFmt\n+ - ProcrustesStatisticsFmt\n - ProteinFASTAFormat\n+ - RNAFASTAFormat\n - ProbabilitiesDirectoryFormat\n+ - SingleLanePerSampleSingleEndFastqDirFmt\n+ - OrdinationFormat\n+ - AlignedRNASequencesDirectoryFormat\n+ - PlacementsDirFmt\n+ - TaxonomicClassiferTemporaryPickleDirFmt\n+ - ArtificialGroupingFormat\n+ - CasavaOneEightSingleLanePerSampleDirFmt\n+ - ImportanceFormat\n+ - DifferentialDirectoryFormat\n+ - DNAFASTAFormat\n - DADA2StatsDirFmt\n- - Bowtie2IndexDirFmt\n- - DifferentialFormat\n- - QIIME1DemuxDirFmt\n+ - BooleanSeriesDirectoryFormat\n+ - AlignedDNASequencesDirectoryFormat\n+ - PredictionsFormat\n+ - MultiplexedPairedEndBarcodeInSequenceDirFmt\n+ - AlphaDiversityFormat\n+ - ProbabilitiesFormat\n+ - EMPSingleEndDirFmt\n+ - BLAST6DirectoryFormat\n+ - PairedRNASequencesDirectoryFormat\n+ - PredictionsDirectoryFormat\n - UchimeStatsFmt\n- - DeblurStatsFmt\n- - DeblurStatsDirFmt\n- - AlignedRNAFASTAFormat\n- - NewickDirectoryFormat\n- - EMPSingleEndDirFmt\n- - PredictionsDirectoryFormat\n- - AlignedDNAFASTAFormat\n- - ArtificialGroupingDirectoryFormat\n- - FirstDifferencesDirectoryFormat\n- - ProcrustesStatisticsFmt\n- - FirstDifferencesFormat\n- - BLAST6DirectoryFormat\n- - PairedDNASequencesDirectoryFormat\n- - ErrorCorrectionDetailsDirFmt\n- - MultiplexedPairedEndBarcodeInSequenceDirFmt\n+ - AlignedProteinSequencesDirectoryFormat\n+ - NewickFormat\n+ - UchimeStatsDirFmt\n+ - SampleEstimatorDirFmt\n+ - ProcrustesStatisticsDirFmt\n+ - DifferentialFormat\n+ - ProteinSequencesDirectoryFormat\n+ - RNASequencesDirectoryFormat\n - LSMatFormat\n- - AlphaDiversityFormat\n- - PlacementsDirFmt\n- - OrdinationFormat\n+ - SingleLanePerSamplePairedEndFastqDirFmt\n+ - QualityFilterStatsFmt\n+ - OrdinationDirectoryFormat\n+ - ErrorCorrectionDetailsDirFmt\n+ - AlignedRNAFASTAFormat\n+ - DNASequencesDirectoryFormat\n - BooleanSeriesFormat\n- - ImportanceDirectoryFormat\n- - AlignedProteinSequencesDirectoryFormat\n- - RNAFASTAFormat\n- - SingleLanePerSamplePairedEndFastqDirFmt\n- - TaxonomicClassiferTemporaryPickleDirFmt\n- - PredictionsFormat\n- - TrueTargetsDirectoryFormat\n- - ProteinSequencesDirectoryFormat\n- - DNAFASTAFormat\n- - QualityFilterStatsFmt\n- - BooleanSeriesDirectoryFormat\n- - DifferentialDirectoryFormat\n- - UchimeStatsDirFmt\n+ - SeppReferenceDirFmt\n+ - DeblurStatsDirFmt\n </help>\n <citations>\n <citation type="doi">10.1038/s41587-019-0209-9</citation>\n'