[med-svn] [Git][med-team/q2-quality-filter][master] 6 commits: New upstream version 2023.7.0
Étienne Mollier (@emollier)
gitlab at salsa.debian.org
Fri Aug 18 17:30:54 BST 2023
Étienne Mollier pushed to branch master at Debian Med / q2-quality-filter
Commits:
f9eb90c4 by Étienne Mollier at 2023-08-18T18:19:31+02:00
New upstream version 2023.7.0
- - - - -
08cdc6a6 by Étienne Mollier at 2023-08-18T18:19:31+02:00
routine-update: New upstream version
- - - - -
2857afce by Étienne Mollier at 2023-08-18T18:19:32+02:00
Update upstream source from tag 'upstream/2023.7.0'
Update to upstream version '2023.7.0'
with Debian dir 049e58c1a56e2637fcaf8e021aec34857e960bc4
- - - - -
c506c55c by Étienne Mollier at 2023-08-18T18:27:29+02:00
skip-test-needing-internet.patch: new patch.
- - - - -
24a2c11a by Étienne Mollier at 2023-08-18T18:29:40+02:00
d/copyright: update copyright year and packagers.
- - - - -
dee93be9 by Étienne Mollier at 2023-08-18T18:30:21+02:00
ready to upload to unstable.
- - - - -
21 changed files:
- + .github/workflows/ci-dev.yaml
- − .github/workflows/ci.yml
- + .github/workflows/join-release.yaml
- + .github/workflows/tag-release.yaml
- LICENSE
- ci/recipe/meta.yaml
- debian/changelog
- debian/copyright
- + debian/patches/series
- + debian/patches/skip-test-needing-internet.patch
- q2_quality_filter/__init__.py
- q2_quality_filter/_examples.py
- q2_quality_filter/_filter.py
- q2_quality_filter/_format.py
- q2_quality_filter/_transformer.py
- q2_quality_filter/_type.py
- q2_quality_filter/_version.py
- q2_quality_filter/plugin_setup.py
- q2_quality_filter/test/__init__.py
- q2_quality_filter/test/test_filter.py
- setup.py
Changes:
=====================================
.github/workflows/ci-dev.yaml
=====================================
@@ -0,0 +1,12 @@
+# Example of workflow trigger for calling workflow (the client).
+name: ci-dev
+on:
+ pull_request:
+ branches: ["dev"]
+ push:
+ branches: ["dev"]
+jobs:
+ ci:
+ uses: qiime2/distributions/.github/workflows/lib-ci-dev.yaml at dev
+ with:
+ distro: core
\ No newline at end of file
=====================================
.github/workflows/ci.yml deleted
=====================================
@@ -1,55 +0,0 @@
-# This file is automatically generated by busywork.qiime2.org and
-# template-repos - any manual edits made to this file will be erased when
-# busywork performs maintenance updates.
-
-name: ci
-
-on:
- pull_request:
- push:
- branches:
- - master
-
-jobs:
- lint:
- runs-on: ubuntu-latest
- steps:
- - name: checkout source
- uses: actions/checkout at v2
-
- - name: set up python 3.8
- uses: actions/setup-python at v1
- with:
- python-version: 3.8
-
- - name: install dependencies
- run: python -m pip install --upgrade pip
-
- - name: lint
- run: |
- pip install -q https://github.com/qiime2/q2lint/archive/master.zip
- q2lint
- pip install -q flake8
- flake8
-
- build-and-test:
- needs: lint
- strategy:
- matrix:
- os: [ubuntu-latest, macos-latest]
- runs-on: ${{ matrix.os }}
- steps:
- - name: checkout source
- uses: actions/checkout at v2
- with:
- fetch-depth: 0
-
- - name: set up git repo for versioneer
- run: git fetch --depth=1 origin +refs/tags/*:refs/tags/*
-
- - uses: qiime2/action-library-packaging at alpha1
- with:
- package-name: q2-quality-filter
- build-target: dev
- additional-tests: py.test --pyargs q2_quality_filter
- library-token: ${{ secrets.LIBRARY_TOKEN }}
=====================================
.github/workflows/join-release.yaml
=====================================
@@ -0,0 +1,6 @@
+name: join-release
+on:
+ workflow_dispatch: {}
+jobs:
+ release:
+ uses: qiime2/distributions/.github/workflows/lib-join-release.yaml at dev
\ No newline at end of file
=====================================
.github/workflows/tag-release.yaml
=====================================
@@ -0,0 +1,7 @@
+name: tag-release
+on:
+ push:
+ branches: ["Release-*"]
+jobs:
+ tag:
+ uses: qiime2/distributions/.github/workflows/lib-tag-release.yaml at dev
\ No newline at end of file
=====================================
LICENSE
=====================================
@@ -1,6 +1,6 @@
BSD 3-Clause License
-Copyright (c) 2017-2022, QIIME 2 development team.
+Copyright (c) 2017-2023, QIIME 2 development team.
All rights reserved.
Redistribution and use in source and binary forms, with or without
=====================================
ci/recipe/meta.yaml
=====================================
@@ -25,6 +25,9 @@ requirements:
- q2-types {{ qiime2_epoch }}.*
test:
+ commands:
+ - py.test --pyargs q2_quality_filter
+
requires:
- qiime2 >={{ qiime2 }}
- q2templates >={{ q2templates }}
=====================================
debian/changelog
=====================================
@@ -1,3 +1,11 @@
+q2-quality-filter (2023.7.0-1) unstable; urgency=medium
+
+ * New upstream version 2023.7.0
+ * skip-test-needing-internet.patch: new patch.
+ * d/copyright: update copyright year and packagers.
+
+ -- Étienne Mollier <emollier at debian.org> Fri, 18 Aug 2023 18:29:56 +0200
+
q2-quality-filter (2022.11.1-2) unstable; urgency=medium
* Team upload
=====================================
debian/copyright
=====================================
@@ -3,12 +3,13 @@ Upstream-Name: QIIME 2
Source: https://github.com/qiime2/q2-quality-filter/releases
Files: *
-Copyright: 2016-2019 QIIME 2 development team
+Copyright: 2016-2023 QIIME 2 development team
License: BSD-3-clause
Files: debian/*
Copyright: 2019 Liubov Chuprikova <chuprikovalv at gmail.com>
- Andreas Tille <tille at debian.org>
+ 2019-2023 Andreas Tille <tille at debian.org>
+ 2020-2023 Étienne Mollier <emollier at debian.org>
License: GPL-2+
License: BSD-3-clause
=====================================
debian/patches/series
=====================================
@@ -0,0 +1 @@
+skip-test-needing-internet.patch
=====================================
debian/patches/skip-test-needing-internet.patch
=====================================
@@ -0,0 +1,24 @@
+Description: skip test needing Internet.
+Author: Étienne Mollier <emollier at debian.org>
+Forwarded: not-needed
+Last-Update: 2023-08-18
+---
+This patch header follows DEP-3: http://dep.debian.net/deps/dep3/
+--- q2-quality-filter.orig/q2_quality_filter/test/test_filter.py
++++ q2-quality-filter/q2_quality_filter/test/test_filter.py
+@@ -9,6 +9,7 @@
+ import unittest
+ import gzip
+ import os
++import pytest
+
+ import pandas as pd
+ import pandas.testing as pdt
+@@ -351,6 +352,7 @@
+ self.assertEqual(obs.id_header, 'sample-id')
+
+
++ at pytest.mark.skip(reason='Test needs Internet')
+ class TestUsageExamples(TestPluginBase):
+ package = 'q2_quality_filter.test'
+
=====================================
q2_quality_filter/__init__.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2017-2022, QIIME 2 development team.
+# Copyright (c) 2017-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
=====================================
q2_quality_filter/_examples.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2016-2022, QIIME 2 development team.
+# Copyright (c) 2016-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
=====================================
q2_quality_filter/_filter.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2017-2022, QIIME 2 development team.
+# Copyright (c) 2017-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
=====================================
q2_quality_filter/_format.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2017-2022, QIIME 2 development team.
+# Copyright (c) 2017-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
=====================================
q2_quality_filter/_transformer.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2017-2022, QIIME 2 development team.
+# Copyright (c) 2017-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
=====================================
q2_quality_filter/_type.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2017-2022, QIIME 2 development team.
+# Copyright (c) 2017-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
=====================================
q2_quality_filter/_version.py
=====================================
@@ -23,9 +23,9 @@ def get_keywords():
# setup.py/versioneer.py will grep for the variable names, so they must
# each be defined on a line of their own. _version.py will just call
# get_keywords().
- git_refnames = " (HEAD -> master, tag: 2022.11.1)"
- git_full = "c5c78e402a3b50168a360c1dd1b3ee9ddf2b435c"
- git_date = "2022-12-21 21:39:48 +0000"
+ git_refnames = " (tag: 2023.7.0, Release-2023.7)"
+ git_full = "5657b153bfb5a54bf35508cfc62e089bf55c7950"
+ git_date = "2023-08-17 18:49:18 +0000"
keywords = {"refnames": git_refnames, "full": git_full, "date": git_date}
return keywords
=====================================
q2_quality_filter/plugin_setup.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2016-2022, QIIME 2 development team.
+# Copyright (c) 2016-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
=====================================
q2_quality_filter/test/__init__.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2016-2022, QIIME 2 development team.
+# Copyright (c) 2016-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
=====================================
q2_quality_filter/test/test_filter.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2016-2022, QIIME 2 development team.
+# Copyright (c) 2016-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
=====================================
setup.py
=====================================
@@ -1,5 +1,5 @@
# ----------------------------------------------------------------------------
-# Copyright (c) 2017-2022, QIIME 2 development team.
+# Copyright (c) 2017-2023, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
View it on GitLab: https://salsa.debian.org/med-team/q2-quality-filter/-/compare/0d308ff77de9bc51fd442999646fb8c84e70eecb...dee93be9e301f176e41c320f38298e5ee4650662
--
View it on GitLab: https://salsa.debian.org/med-team/q2-quality-filter/-/compare/0d308ff77de9bc51fd442999646fb8c84e70eecb...dee93be9e301f176e41c320f38298e5ee4650662
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