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Changeset 0:0214b9ae8a6e (2022-08-29)

Next changeset 1:d3b1853c4efd (2023-01-13)

Commit message:
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2_core__tools commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1

added:
qiime2_core__tools__export.xml
test-data/.gitkeep

diff -r 000000000000 -r 0214b9ae8a6e qiime2_core__tools__export.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/qiime2_core__tools__export.xml Mon Aug 29 20:37:34 2022 +0000

[

b'@@ -0,0 +1,891 @@\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+ <description>Export data from a QIIME 2 artifact</description>\n+ <requirements>\n+ <container type="docker">quay.io/qiime2/core:2022.8</container>\n+ </requirements>\n+ <command>q2galaxy run tools export \'$inputs\'</command>\n+ <configfiles>\n+ <inputs name="inputs" data_style="paths"/>\n+ </configfiles>\n+ <inputs>\n+ <param name="input" type="data" format="qza" label="input: The path to the artifact you want to export"/>\n+ <param name="type_peek" type="select" label="The type of your input qza is:" display="radio">\n+ <options>\n+ <filter type="data_meta" key="semantic_type" ref="input"/>\n+ </options>\n+ </param>\n+ <param name="fmt_peek" type="select" label="The current QIIME 2 format is:" display="radio">\n+ <options>\n+ <filter type="data_meta" key="format" ref="input"/>\n+ </options>\n+ </param>\n+ <conditional name="fmt_finder">\n+ <param name="type" type="select" label="To change the format, select the type indicated above:">\n+ <option value="None" selected="true">export as is (no conversion)</option>\n+ <option value="Bowtie2Index">Bowtie2Index</option>\n+ <option value="DeblurStats">DeblurStats</option>\n+ <option value="DistanceMatrix">DistanceMatrix</option>\n+ <option value="EMPPairedEndSequences">EMPPairedEndSequences</option>\n+ <option value="EMPSingleEndSequences">EMPSingleEndSequences</option>\n+ <option value="ErrorCorrectionDetails">ErrorCorrectionDetails</option>\n+ <option value="FeatureData__ob__AlignedProteinSequence__cb__">FeatureData[AlignedProteinSequence]</option>\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__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+ <option value="FeatureData__ob__PairedEndSequence__cb__">FeatureData[PairedEndSequence]</option>\n+ <option value="FeatureData__ob__ProteinSequence__cb__">FeatureData[ProteinSequence]</option>\n+ <option value="FeatureData__ob__RNASequence__cb__">FeatureData[RNASequence]</option>\n+ <option value="FeatureData__ob__Sequence__cb__">FeatureData[Sequence]</option>\n+ <option value="FeatureData__ob__Taxonomy__cb__">FeatureData[Taxonomy]</option>\n+ <option value="FeatureTable__ob__Balance__cb__">FeatureTable[Balance]</option>\n+ <option value="FeatureTable__ob__Composition__cb__">FeatureTable[Composition]</option>\n+ <option value="FeatureTable__ob__Design__cb__">FeatureTable[Design]</option>\n+ <option value="FeatureTable__ob__Frequency__cb__">FeatureTable[Frequency]</option>\n+ <option value="FeatureTable__ob__PercentileNormalized__cb__">FeatureTable[PercentileNormalized]</option>\n+ <option value="FeatureTable__ob__PresenceAbsence__cb__">FeatureTab'..b'VTaxonomyFormat\n+*****************\n+Format for a 2+ column TSV file with an expected minimal header.\n+\n+The only header recognized by this format is:\n+\n+ Feature ID<tab>Taxon\n+\n+Optionally followed by other arbitrary columns.\n+\n+This format supports blank lines. The expected header must be the first\n+non-blank line. In addition to the header, there must be at least one line\n+of data.\n+\n+\n+QIIME1DemuxFormat\n+*****************\n+QIIME 1 demultiplexed FASTA format.\n+\n+The QIIME 1 demultiplexed FASTA format is the default output format of\n+``split_libraries.py`` and ``split_libraries_fastq.py``. The file output by\n+QIIME 1 is named ``seqs.fna``; this filename is sometimes associated with\n+the file format itself due to its widespread usage in QIIME 1.\n+\n+The format is documented here:\n+http://qiime.org/documentation/file_formats.html#demultiplexed-sequences\n+\n+Format details:\n+\n+- FASTA file with exactly two lines per record: header and sequence. Each\n+ sequence must span exactly one line and cannot be split across multiple\n+ lines.\n+\n+- The ID in each header must follow the format ``<sample-id>_<seq-id>``.\n+ ``<sample-id>`` is the identifier of the sample the sequence belongs to,\n+ and ``<seq-id>`` is an identifier for the sequence *within* its sample.\n+ In QIIME 1, ``<seq-id>`` is typically an incrementing integer starting\n+ from zero, but any non-empty value can be used here, as long as the\n+ header IDs remain unique throughout the file. Note: ``<sample-id>`` may\n+ contain sample IDs that contain underscores; the rightmost underscore\n+ will used to delimit sample and sequence IDs.\n+\n+- Descriptions in headers are permitted and ignored.\n+\n+- Header IDs must be unique within the file.\n+\n+- Each sequence must be DNA and cannot be empty.\n+\n+\n+FastqGzFormat\n+*************\n+\n+A gzipped fastq file.\n+\n+\n+Additional formats without documentation:\n+*****************************************\n+ - AlignedRNASequencesDirectoryFormat\n+ - MultiplexedSingleEndBarcodeInSequenceDirFmt\n+ - AlignedDNASequencesDirectoryFormat\n+ - NewickFormat\n+ - SeppReferenceDirFmt\n+ - ProcrustesStatisticsDirFmt\n+ - PairedRNASequencesDirectoryFormat\n+ - BIOMV210DirFmt\n+ - EMPPairedEndDirFmt\n+ - DistanceMatrixDirectoryFormat\n+ - AlphaDiversityDirectoryFormat\n+ - OrdinationDirectoryFormat\n+ - ArtificialGroupingFormat\n+ - BLAST6Format\n+ - RNASequencesDirectoryFormat\n+ - ProbabilitiesFormat\n+ - PlacementsFormat\n+ - DADA2StatsFormat\n+ - SampleEstimatorDirFmt\n+ - ImportanceFormat\n+ - AlignedProteinFASTAFormat\n+ - DNASequencesDirectoryFormat\n+ - BIOMV210Format\n+ - TSVTaxonomyDirectoryFormat\n+ - QualityFilterStatsDirFmt\n+ - SingleLanePerSampleSingleEndFastqDirFmt\n+ - CasavaOneEightSingleLanePerSampleDirFmt\n+ - ProteinFASTAFormat\n+ - ProbabilitiesDirectoryFormat\n+ - DADA2StatsDirFmt\n+ - Bowtie2IndexDirFmt\n+ - DifferentialFormat\n+ - QIIME1DemuxDirFmt\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+ - LSMatFormat\n+ - AlphaDiversityFormat\n+ - PlacementsDirFmt\n+ - OrdinationFormat\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+</help>\n+ <citations>\n+ <citation type="doi">10.1038/s41587-019-0209-9</citation>\n+ </citations>\n+</tool>\n'