GEOPY-1617: solving dependencies to be locked and used from simpeg-drivers

.github/workflows/issue_to_jira.yml

@@ -0,0 +1,36 @@
+# 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": "simpeg"}]}'
+    - name: Post JIRA link
+      uses: peter-evans/create-or-update-comment@v3
+      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."

.github/workflows/pr_add_jira_summary.yml

@@ -0,0 +1,64 @@
+# 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

pyproject.toml

@@ -4,7 +4,7 @@
 #parameter estimation in the context of geophysical applications.
 
 [tool.poetry]
-name = "Mira-SimPEG"
+name = "mira-simpeg"
 version = "0.21.2.1-alpha.1"
 license = "MIT"
 description = "Mira Geoscience fork of SimPEG: Simulation and Parameter Estimation in Geophysics"
@@ -37,26 +37,22 @@ packages = [
 exclude = ["tests*", "examples*", "tutorials*"]
 
 include = [
-    "COPYING",
-    "COPYING.LESSER",
-    "LICENSE",
-    "README.rst",
-    "THIRD_PARTY_SOFTWARE.rst",
+    { path = "COPYING", format = ["sdist", "wheel"] },
+    { path = "COPYING.LESSER", format = ["sdist", "wheel"] },
+    { path = "LICENSE", format = ["sdist", "wheel"] },
+    { path = "README.rst", format = ["sdist", "wheel"] },
+    { path = "THIRD_PARTY_SOFTWARE.rst", format = ["sdist", "wheel"] },
+    { path = "docs/**/THIRD_PARTY_SOFTWARE.rst", format = ["sdist", "wheel"] },
 ]
 
 [tool.poetry.dependencies]
-discretize = ">=0.8.0"
+python = "^3.10"
+
+discretize = ">=0.10.0"
 empymod = ">=2.0.0"
-geoana = "*"
-geoh5py = {version = "*", allow-prereleases = true}
-#geoh5py = {url = "http://localhost:8888/geoh5py.tar.gz#sha256="}
+geoana = ">=0.5.0"
 matplotlib = "*"
 numpy = ">=1.20"
-mkl = "2023.2.0"  # from simpeg
-pydiso = "~0.0.5"  # from simpeg
-tbb = "2021.12.0"
-tzdata = "2023.4"  # through pandas from SimPEG
-intel-openmp = "2023.2.0"  # from simpeg
 pandas = "*"
 pymatsolver = ">=0.2"
 scikit-learn = ">=1.2"
@@ -67,6 +63,13 @@ distributed = {version = "*", optional = true}
 fsspec = {version = ">=0.3.3", optional = true}
 zarr = {version = "*", optional = true}
 
+## Pip dependencies from Git repositories
+#----------------------------------------
+geoh5py = {version = ">=0.9.1, <0.11", allow-prereleases = true}
+#geoh5py = {url = "https://github.com/MiraGeoscience/geoh5py/archive/refs/heads/develop.tar.gz"}
+#geoh5py = {git = "https://github.com/MiraGeoscience/geoh5py.git", rev = "develop"}
+#geoh5py = {url = "http://localhost:8888/geoh5py.tar.gz"}
+
 [tool.poetry.group.dev.dependencies]
 black = "*"
 jupyter = "*"
@@ -94,10 +97,6 @@ dask = [
     "zarr",
 ]
 
-[tool.conda-lock]
-platforms = ['win-64', 'osx-64', 'linux-64']
-channels = ['conda-forge', 'intel']
-
 [tool.black]
 # defaults are just fine