Release 0.1.0

.github/workflows/issue_to_jira.yml

@@ -1,36 +1,12 @@
-# This workflow will create a JIRA issue upon creation of a GitHub issue
-
 name: Create JIRA issue
 
 on:
   issues:
     types: [opened]
 
 jobs:
-  new_jira_issue:
-    runs-on: ubuntu-latest
-
-    steps:
-    - name: JIRA Login
-      uses: atlassian/gajira-login@v3.0.1
-      env:
-        JIRA_BASE_URL: ${{ secrets.JIRA_BASE_URL }}
-        JIRA_USER_EMAIL: ${{ secrets.JIRA_USER_EMAIL }}
-        JIRA_API_TOKEN: ${{ secrets.JIRA_API_TOKEN }}
-    - name: Jira Create issue
-      id: create_jira_issue
-      uses: atlassian/gajira-create@v3.0.1
-      with:
-        project: GEOPY
-        issuetype: Story
-        summary: ${{ github.event.issue.title }}
-        description: "_from [GitHub issue #${{ github.event.issue.number }}|${{ github.event.issue.html_url }}]_"
-        # Additional fields in JSON format
-        #fields: '{"components": [{"name": "plate-simulation"}]}'
-    - name: Post JIRA link
-      uses: peter-evans/create-or-update-comment@v4
-      with:
-        # The number of the issue or pull request in which to create a comment.
-        issue-number: ${{ github.event.issue.number }}
-        # The comment body.
-        body: "JIRA issue [${{ steps.create_jira_issue.outputs.issue }}] was created."
+  call-workflow-create-jira-issue:
+    uses: MiraGeoscience/CI-tools/.github/workflows/reusable-jira-issue_to_jira.yml@main
+    secrets: inherit
+    with:
+      project-key: 'GEOPY'

.github/workflows/pr_add_jira_summary.yml

@@ -1,64 +1,10 @@
-# This workflow will comment the PR with the JIRA issue summary
-# if a JIRA issue number is detected in the branch name or title
-
 name: Add JIRA issue summary
 
 on:
   pull_request_target:
     types: [opened]
 
 jobs:
-  add_jira_summary:
-    runs-on: ubuntu-latest
-
-    steps:
-    - name: Find JIRA issue key
-      id: find_jira_key
-      env:
-        HEAD_REF: ${{ github.head_ref}}
-        PR_TITLE: ${{ github.event.pull_request.title }}
-      run: >
-        echo $HEAD_REF $PR_TITLE
-        | echo "issue_key=$(
-        grep -osi "\b\(GA\|GEOPY\|DEVOPS\)[ #-]*[0-9]\+"
-        | head -n1
-        | sed -E "s/([A-Z]+)[-# ]*([0-9]+)/\1-\2/i"
-        | tr [:lower:] [:upper:]
-        )"
-        >> $GITHUB_OUTPUT
-    - name: Get JIRA summary
-      id: get_jira_summary
-      if: ${{ steps.find_jira_key.outputs.issue_key }}
-      env:
-        JIRA_BASE_URL: ${{ secrets.JIRA_BASE_URL }}
-        JIRA_BASIC_AUTH: ${{ secrets.JIRA_BASIC_AUTH }}
-      run: >
-        curl -sS -X GET
-        -H "Authorization: Basic $JIRA_BASIC_AUTH"
-        -H "Content-Type: application/json"
-        "$JIRA_BASE_URL/rest/api/2/issue/${{ steps.find_jira_key.outputs.issue_key }}"
-        | echo "summary=$(jq -r '.fields.summary // empty')" >> $GITHUB_OUTPUT
-    - name: Extract PR title
-      id: get_pr_title
-      env:
-        PR_TITLE: ${{ github.event.pull_request.title }}
-      run: |
-        echo "text=$(echo $PR_TITLE | sed -E "s/^\s*[?[A-Z]+[-# ]*[0-9]+]?[-: ]*(.*)/\1/i")" >> $GITHUB_OUTPUT
-    - name: Add comment
-      if: ${{ steps.find_jira_key.outputs.issue_key }}
-      env:
-        ISSUE_SUMMARY: ${{ steps.get_jira_summary.outputs.summary }}
-        TITLE_TEXT: ${{ steps.get_pr_title.outputs.text }}
-        PR_BODY: ${{ github.event.pull_request.body }}
-      run: >
-        jq
-        --arg ISSUE_ID "${{ steps.find_jira_key.outputs.issue_key }}"
-        --arg ISSUE_SUMMARY "$(cat <<< $ISSUE_SUMMARY)"
-        --arg TITLE_TEXT "$(cat <<< ${TITLE_TEXT:-$ISSUE_SUMMARY})"
-        --arg PR_BODY "$(cat <<< $PR_BODY)"
-        -c '{"title": ($ISSUE_ID + ": " + $TITLE_TEXT), "body": ("**" + $ISSUE_ID + " - " + $ISSUE_SUMMARY + "**\n" + $PR_BODY)}' <<< {}
-        | curl -sS -X POST -d @-
-        -H "Authorization: token ${{ secrets.GITHUB_TOKEN }}"
-        -H "Content-Type: application/json"
-        "$GITHUB_API_URL/repos/$GITHUB_REPOSITORY/pulls/${{ github.event.pull_request.number }}"
-        > /dev/null
+  call-workflow-add-jira-issue-summary:
+    uses: MiraGeoscience/CI-tools/.github/workflows/reusable-jira-pr_add_jira_summary.yml@main
+    secrets: inherit

.github/workflows/python_analysis.yml

@@ -0,0 +1,48 @@
+name: Python analysis
+
+on:
+  pull_request:
+    types: [opened, synchronize, reopened, ready_for_review]
+    branches:
+      - develop
+      - main
+      - release/**
+      - feature/**
+      - hotfix/**
+  push:
+    branches:
+      - develop
+      - main
+      - release/**
+      - feature/**
+      - hotfix/**
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.head_ref || github.run_id }}
+  cancel-in-progress: true
+
+env:
+  app-name: 'plate_simulation'
+  package-manager: 'conda'
+
+jobs:
+  call-workflow-static-analysis:
+    name: Static analysis
+    uses: MiraGeoscience/CI-tools/.github/workflows/reusable-python-static_analysis.yml@main
+    with:
+      package-manager: 'conda'
+      app-name: ${{ github.env.app-name }}
+      python-version: '3.10'
+  call-workflow-pytest:
+    name: Pytest
+    uses: MiraGeoscience/CI-tools/.github/workflows/reusable-python-pytest.yml@main
+    with:
+      package-manager: 'conda'
+      python-versions: '["3.10", "3.11"]'
+      os: '["ubuntu-latest", "windows-latest"]'
+      cache-number: 1
+      codecov-reference-python-version: '3.10'
+      codecov-reference-os: '["windows-latest"]'
+      lfs: true
+    secrets:
+      CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}

.github/workflows/python_deploy_dev.yml

@@ -0,0 +1,36 @@
+name: Deploy python package in development
+
+on:
+  push:
+    tags:
+      - 'v*' # Push events to every version tag (eg. v1.0.0)
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref || github.run_id }}
+  cancel-in-progress: true
+
+jobs:
+  call-workflow-conda-publish:
+    name: Publish development conda package on JFrog Artifactory
+    uses: MiraGeoscience/CI-tools/.github/workflows/reusable-python-publish_rattler_package.yml@main
+    with:
+      package-name: 'plate-simulation'
+      python-version: '3.10'
+      source-repo-names: '["public-conda-dev-local", "conda-forge-dev-remote"]'
+      publish-repo-names: '["public-conda-dev"]'
+    secrets:
+      JFROG_ARTIFACTORY_URL: ${{ secrets.JFROG_ARTIFACTORY_URL }}
+      JFROG_ARTIFACTORY_TOKEN: ${{ secrets.JFROG_ARTIFACTORY_TOKEN }}
+  call-workflow-pypi-publish:
+    name: Publish development pypi package (JFrog Artifactory, TestPyPI)
+    uses: MiraGeoscience/CI-tools/.github/workflows/reusable-python-publish_pypi_package.yml@main
+    with:
+      package-manager: 'poetry'
+      package-name: 'plate-simulation'
+      version-tag: ${{ github.ref_name }}
+      python-version: '3.10'
+      virtual-repo-names: '["public-pypi-dev", "test-pypi"]'
+    secrets:
+      JFROG_ARTIFACTORY_URL: ${{ secrets.JFROG_ARTIFACTORY_URL }}
+      JFROG_ARTIFACTORY_TOKEN: ${{ secrets.JFROG_ARTIFACTORY_TOKEN }}
+      PYPI_TOKEN: ${{ secrets.TEST_PYPI_TOKEN }}

.github/workflows/python_deploy_prod.yml

@@ -0,0 +1,46 @@
+name: Deploy python package in production
+
+on:
+  release:
+    types: [published]
+  workflow_dispatch:
+    inputs:
+      release-tag:
+        description: 'Tag for the existing (draft) release to publish assets from'
+        required: true
+      publish-conda:
+        description: 'Publish Conda package'
+        required: false
+        default: true
+      publish-pypi:
+        description: 'Publish PyPI package'
+        required: false
+        default: true
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.event.release.tag_name || github.event.inputs.release-tag || github.run_id }}
+  cancel-in-progress: true
+
+jobs:
+  call-workflow-conda-release:
+    name: Publish production Conda package on JFrog Artifactory
+    uses: MiraGeoscience/CI-tools/.github/workflows/reusable-python-release_conda_assets.yml@main
+    if: ${{ github.event_name == 'release' || github.event.inputs.publish-conda == 'true' }}
+    with:
+      virtual-repo-names: '["public-conda-prod"]'
+      release-tag: ${{ github.event.release.tag_name || github.event.inputs.release-tag }}
+    secrets:
+      JFROG_ARTIFACTORY_URL: ${{ secrets.JFROG_ARTIFACTORY_URL }}
+      JFROG_ARTIFACTORY_TOKEN: ${{ secrets.JFROG_ARTIFACTORY_TOKEN }}
+  call-workflow-pypi-release:
+    name: Publish production PyPI package (JFrog Artifactory, PyPI)
+    if: ${{ github.event_name == 'release' || github.event.inputs.publish-pypi == 'true' }}
+    uses: MiraGeoscience/CI-tools/.github/workflows/reusable-python-release_pypi_assets.yml@main
+    with:
+      package-name: 'plate-simulation'
+      virtual-repo-names: '["public-pypi-prod", "pypi"]'
+      release-tag: ${{ github.event.release.tag_name || github.event.inputs.release-tag }}
+    secrets:
+      JFROG_ARTIFACTORY_URL: ${{ secrets.JFROG_ARTIFACTORY_URL }}
+      JFROG_ARTIFACTORY_TOKEN: ${{ secrets.JFROG_ARTIFACTORY_TOKEN }}
+      PYPI_TOKEN: ${{ secrets.PYPI_TOKEN }}