Merge pull request #419 from bernt-matthias/topic/qiime2-names

galaxyproject · May 27, 2024 · f646742 · f646742
2 parents 48fc0ca + 203cabe
commit f646742
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Showing 11 changed files with 26 additions and 14 deletions.
diff --git a/workflows/amplicon/qiime2/qiime2-I-import/.dockstore.yml b/workflows/amplicon/qiime2/qiime2-I-import/.dockstore.yml
@@ -1,6 +1,6 @@
 version: 1.2
 workflows:
-- name: QIIME2-Ia import multiplexed data single end
+- name: Ia-import-multiplexed-se
   subclass: Galaxy
   publish: true
   primaryDescriptorPath: /QIIME2-Ia-multiplexed-data-single-end.ga
@@ -11,7 +11,7 @@ workflows:
     orcid: 0009-0008-1496-1677
   - name: "Helmholtz-Zentrum für Umweltforschung - UFZ"
     address: "Permoserstraße 15, 04318 Leipzig"
-- name: QIIME2-Ib import multiplexed data paired end
+- name: Ib-import-multiplexed-pe
   subclass: Galaxy
   publish: true
   primaryDescriptorPath: /QIIME2-Ib-multiplexed-data-paired-end.ga
@@ -22,7 +22,7 @@ workflows:
     orcid: 0009-0008-1496-1677
   - name: "Helmholtz-Zentrum für Umweltforschung - UFZ"
     address: "Permoserstraße 15, 04318 Leipzig"
-- name: QIIME2-Ic import demultiplexed data single end
+- name: Ic-import-demultiplexed-se
   subclass: Galaxy
   publish: true
   primaryDescriptorPath: /QIIME2-Ic-demultiplexed-data-single-end.ga
@@ -33,7 +33,7 @@ workflows:
     orcid: 0009-0008-1496-1677
   - name: "Helmholtz-Zentrum für Umweltforschung - UFZ"
     address: "Permoserstraße 15, 04318 Leipzig"
-- name: QIIME2-Id import demultiplexed data paired end
+- name: Id-import-demultiplexed-pe
   subclass: Galaxy
   publish: true
   primaryDescriptorPath: /QIIME2-Id-demultiplexed-data-paired-end.ga

diff --git a/workflows/amplicon/qiime2/qiime2-I-import/CHANGELOG.md b/workflows/amplicon/qiime2/qiime2-I-import/CHANGELOG.md
@@ -0,0 +1,6 @@
+# Changelog
+
+## [0.1] 2024-04-08
+First release.
+## [0.2] 2024-05-23
+Fix dockstore.yml and test.
diff --git a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ia-multiplexed-data-single-end.ga b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ia-multiplexed-data-single-end.ga
@@ -15,7 +15,7 @@
     ],
     "format-version": "0.1",
     "license": "MIT",
-    "release": "0.1",
+    "release": "0.2",
     "name": "QIIME2 Ia: multiplexed data (single-end)",
     "steps": {
         "0": {

diff --git a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ib-multiplexed-data-paired-end-tests.yml b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ib-multiplexed-data-paired-end-tests.yml
@@ -40,6 +40,6 @@
               - has_text:
                   text: "uuid:"
               - has_text:
-                  text: "type: SampleData[SequencesWithQuality]"
+                  text: "SampleData[PairedEndSequencesWithQuality]"
               - has_text:
-                  text: "format: SingleLanePerSampleSingleEndFastqDirFmt"
+                  text: "format: SingleLanePerSamplePairedEndFastqDirFmt"
diff --git a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ib-multiplexed-data-paired-end.ga b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ib-multiplexed-data-paired-end.ga
@@ -15,7 +15,7 @@
     ],
     "format-version": "0.1",
     "license": "MIT",
-    "release": "0.1",
+    "release": "0.2",
     "name": "QIIME2 Ib: multiplexed data (paired-end)",
     "steps": {
         "0": {

diff --git a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ic-demultiplexed-data-single-end.ga b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ic-demultiplexed-data-single-end.ga
@@ -15,7 +15,7 @@
     ],
     "format-version": "0.1",
     "license": "MIT",
-    "release": "0.1",
+    "release": "0.2",
     "name": "QIIME2 Ic: Demultiplexed data (single-end)",
     "steps": {
         "0": {

diff --git a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Id-demultiplexed-data-paired-end.ga b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Id-demultiplexed-data-paired-end.ga
@@ -14,7 +14,7 @@
         }
     ],
     "format-version": "0.1",
-    "release": "0.1",
+    "release": "0.2",
     "license": "MIT",
     "name": "QIIME2 Id: Demultiplexed data (paired-end)",
     "steps": {

diff --git a/workflows/amplicon/qiime2/qiime2-II-denoising/.dockstore.yml b/workflows/amplicon/qiime2/qiime2-II-denoising/.dockstore.yml
@@ -1,6 +1,6 @@
 version: 1.2
 workflows:
-- name: QIIME2-IIa denoising and feature table creation for single ended data
+- name: IIa-denoising-se
   subclass: Galaxy
   publish: true
   primaryDescriptorPath: /QIIME2-IIa-denoising-and-feature-table-creation-single-end.ga
@@ -11,7 +11,7 @@ workflows:
     orcid: 0009-0008-1496-1677
   - name: "Helmholtz-Zentrum für Umweltforschung - UFZ"
     address: "Permoserstraße 15, 04318 Leipzig"
-- name: QIIME2-IIb denoising and feature table creation for paired ended data
+- name: IIb-denoising-pe
   subclass: Galaxy
   publish: true
   primaryDescriptorPath: /QIIME2-IIb-denoising-and-feature-table-creation-paired-end.ga

diff --git a/workflows/amplicon/qiime2/qiime2-II-denoising/CHANGELOG.md b/workflows/amplicon/qiime2/qiime2-II-denoising/CHANGELOG.md
@@ -0,0 +1,6 @@
+# Changelog
+
+## [0.1] 2024-04-08
+First release.
+## [0.2] 2024-05-23
+Fix dockstore.yml.
diff --git a/.../qiime2/qiime2-II-denoising/QIIME2-IIa-denoising-and-feature-table-creation-single-end.ga b/.../qiime2/qiime2-II-denoising/QIIME2-IIa-denoising-and-feature-table-creation-single-end.ga
@@ -15,7 +15,7 @@
         }
     ],
     "format-version": "0.1",
-    "release": "0.1",
+    "release": "0.2",
     "license": "MIT",
     "name": "QIIME2 IIa: Denoising (sequence quality control) and feature table creation (single-end)",
     "steps": {

diff --git a/.../qiime2/qiime2-II-denoising/QIIME2-IIb-denoising-and-feature-table-creation-paired-end.ga b/.../qiime2/qiime2-II-denoising/QIIME2-IIb-denoising-and-feature-table-creation-paired-end.ga
@@ -15,7 +15,7 @@
         }
     ],
     "format-version": "0.1",
-    "release": "0.1",
+    "release": "0.2",
     "license": "MIT",
     "name": "QIIME2 IIb: Denoising (sequence quality control) and feature table creation (paired-end)",
     "steps": {