Merge pull request #68 from MiraGeoscience/merge_release_to_develop

Merge release to develop

Author: sebhmg

.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": "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."
+  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

meta.yaml

@@ -1,5 +1,5 @@
 {% set name = "mira-simpeg" %}
-{% set version = "0.21.2.1b3" %}
+{% set version = "0.21.2.1rc1" %}
 
 package:
   name: {{ name|lower }}
@@ -15,7 +15,7 @@ build:
 
 requirements:
   host:
-    - python >=3.10
+    - python >=3.10.0,<3.12.0
     - poetry-core >=1.0.0
     - setuptools >=64
     - setuptools_scm >=8

simpeg/dask/potential_fields/base.py

@@ -93,13 +93,13 @@ def dask_linear_operator(self):
                 # Check that loaded kernel matches supplied data and mesh
                 print("Zarr file detected with same shape and chunksize ... re-loading")
                 return kernel
-        else:
-            print("Writing Zarr file to disk")
-            with ProgressBar():
-                print("Saving kernel to zarr: " + sens_name)
-                kernel = array.to_zarr(
-                    stack, sens_name, compute=True, return_stored=True, overwrite=True
-                )
+
+        print("Writing Zarr file to disk")
+        with ProgressBar():
+            print("Saving kernel to zarr: " + sens_name)
+            kernel = array.to_zarr(
+                stack, sens_name, compute=True, return_stored=True, overwrite=True
+            )
     elif forward_only:
         with ProgressBar():
             print("Forward calculation: ")

simpeg/potential_fields/base.py

@@ -75,7 +75,6 @@ def __init__(
         self,
         mesh,
         ind_active=None,
-        store_sensitivities="ram",
         n_processes=1,
         sensitivity_dtype=np.float32,
         engine="geoana",
@@ -93,7 +92,6 @@ def __init__(
                 "forwardOnly was removed in SimPEG 0.17.0, please set store_sensitivities=None"
             )
 
-        self.store_sensitivities = store_sensitivities
         self.sensitivity_dtype = sensitivity_dtype
         self.engine = engine
         self.numba_parallel = numba_parallel
@@ -148,31 +146,6 @@ def __init__(
         self._nodes = nodes[unique]  # unique active nodes
         self._unique_inv = unique_inv.reshape(cell_nodes.T.shape)
 
-    @property
-    def store_sensitivities(self):
-        """Options for storing sensitivities.
-
-        There are 3 options:
-
-        - 'ram': sensitivity matrix stored in RAM
-        - 'disk': sensitivities written and stored to disk
-        - 'forward_only': sensitivities are not store (only use for forward simulation)
-
-        Returns
-        -------
-        {'disk', 'ram', 'forward_only'}
-            A string defining the model type for the simulation.
-        """
-        if self._store_sensitivities is None:
-            self._store_sensitivities = "ram"
-        return self._store_sensitivities
-
-    @store_sensitivities.setter
-    def store_sensitivities(self, value):
-        self._store_sensitivities = validate_string(
-            "store_sensitivities", value, ["disk", "ram", "forward_only"]
-        )
-
     @property
     def sensitivity_dtype(self):
         """dtype of the sensitivity matrix.