# HG changeset patch
# User q2d2
# Date 1714079321 0
# Node ID 4a129fe72b67cb211b72c34c12d6be3f2c5f3165
# Parent  540707a41f821e7802f3d2c03b5380a1c48e71a5
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__feature_table commit 389df0134cd0763dcf02aac6e623fc15f8861c1e

diff -r 540707a41f82 -r 4a129fe72b67 qiime2__feature_table__filter_samples.xml
--- a/qiime2__feature_table__filter_samples.xml	Thu Jun 08 19:47:56 2023 +0000
+++ b/qiime2__feature_table__filter_samples.xml	Thu Apr 25 21:08:41 2024 +0000
@@ -1,31 +1,31 @@
 <?xml version='1.0' encoding='utf-8'?>
 <!--
-Copyright (c) 2023, QIIME 2 development team.
+Copyright (c) 2024, QIIME 2 development team.
 
 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
 -->
 <!--
 This tool was automatically generated by:
-    q2galaxy (version: 2023.5.0)
+    q2galaxy (version: 2024.2.1)
 for:
-    qiime2 (version: 2023.5.1)
+    qiime2 (version: 2024.2.0)
 -->
-<tool name="qiime2 feature-table filter-samples" id="qiime2__feature_table__filter_samples" version="2023.5.0+q2galaxy.2023.5.0.2" profile="22.05" license="BSD-3-Clause">
+<tool name="qiime2 feature-table filter-samples" id="qiime2__feature_table__filter_samples" version="2024.2.2+q2galaxy.2024.2.1" profile="22.05" license="BSD-3-Clause">
     <description>Filter samples from table</description>
     <requirements>
-        <container type="docker">quay.io/qiime2/core:2023.5</container>
+        <container type="docker">quay.io/qiime2/amplicon:2024.2</container>
     </requirements>
     <version_command>q2galaxy version feature_table</version_command>
     <command detect_errors="exit_code">q2galaxy run feature_table filter_samples '$inputs'</command>
     <configfiles>
-        <inputs name="inputs" data_style="paths"/>
+        <inputs name="inputs" data_style="staging_path_and_source_path"/>
     </configfiles>
     <inputs>
         <param name="table" type="data" format="qza" label="table: FeatureTable[Frequency¹ | RelativeFrequency² | PresenceAbsence³ | Composition⁴]" help="[required]  The feature table from which samples should be filtered.">
             <options options_filter_attribute="metadata.semantic_type">
-                <filter type="add_value" value="FeatureTable[Frequency]"/>
                 <filter type="add_value" value="FeatureTable[Composition]"/>
                 <filter type="add_value" value="FeatureTable[PresenceAbsence]"/>
+                <filter type="add_value" value="FeatureTable[Frequency]"/>
                 <filter type="add_value" value="FeatureTable[RelativeFrequency]"/>
             </options>
             <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureTable[Composition]', 'FeatureTable[Frequency]', 'FeatureTable[PresenceAbsence]', 'FeatureTable[RelativeFrequency]']</validator>
@@ -67,6 +67,7 @@
             </conditional>
             <param name="exclude_ids" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="exclude_ids: Bool" help="[default: No]  If true, the samples selected by `metadata` or `where` parameters will be excluded from the filtered table instead of being retained."/>
             <param name="filter_empty_features" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" checked="true" label="filter_empty_features: Bool" help="[default: Yes]  If true, features which are not present in any retained samples are dropped."/>
+            <param name="allow_empty_table" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="allow_empty_table: Bool" help="[default: No]  If true, the filtered table may be empty. Default behavior is to raise an error if the filtered table is empty."/>
         </section>
     </inputs>
     <outputs>
diff -r 540707a41f82 -r 4a129fe72b67 test-data/filter_features.test0.feature-table.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/group.test0.feature-table.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/merge.test0.feature-table1.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/merge_seqs.test0.seqs1.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/merge_taxa.test0.tax1.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/summarize.test0.feature-table.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/summarize_plus.test0.feature-table.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/tabulate_feature_frequencies.test0.feature-table.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/tabulate_sample_frequencies.test0.feature-table.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/tabulate_seqs.test0.rep-seqs.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/tabulate_seqs.test1.rep-seqs-single-taxon.qza
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diff -r 540707a41f82 -r 4a129fe72b67 test-data/tabulate_seqs.test2.multi-taxonomy/.order
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/tabulate_seqs.test2.multi-taxonomy/.order	Thu Apr 25 21:08:41 2024 +0000
@@ -0,0 +1,2 @@
+GG1
+GG2
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