Merge pull request #44 from Unique-Usman/usman

Updated the github workflow actions to updated one

Author: etpeterson

.github/workflows/analysis.yml

@@ -12,10 +12,10 @@ jobs:
     outputs: # here we use the outputs from steps, and set outputs for the job `configure`
       algorithms: ${{ steps.algorithms.outputs.algorithms }}
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: Set up Python
         id: setup_python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: "3.11"
           cache: 'pip'
@@ -53,9 +53,9 @@ jobs:
         algorithm: ${{fromJson(needs.algorithms.outputs.algorithms).algorithms}}
         SNR: [10, 30, 50, 100, 200]
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: "3.11"
           cache: 'pip'
@@ -75,7 +75,7 @@ jobs:
           source .venv/bin/activate
           python -m pytest -m slow --selectAlgorithm ${{ matrix.algorithm }} --saveFileName test_output_${{ matrix.algorithm }}_${{ matrix.SNR }}.csv --SNR ${{ matrix.SNR }} --fitCount 300 --saveDurationFileName test_duration_${{ matrix.algorithm }}_${{ matrix.SNR }}.csv
       - name: Upload raw data
-        uses: actions/upload-artifact@v3
+        uses: actions/upload-artifact@v4
         with:
             name: Working_Data
             retention-days: 1
@@ -88,7 +88,7 @@ jobs:
     needs: build
     steps:
       - name: Download artifacts
-        uses: actions/download-artifact@v3
+        uses: actions/download-artifact@v4
         with:
           path: artifacts
       - name: Merge fitting results
@@ -100,7 +100,7 @@ jobs:
           head -n 1 $(ls artifacts/Working_Data/test_duration_*.csv | head -n 1) > test_duration.csv
           tail -q -n +2 artifacts/Working_Data/test_duration_*.csv >> test_duration.csv
       - name: Upload merged artifacts
-        uses: actions/upload-artifact@v3
+        uses: actions/upload-artifact@v4
         with:
           name: Data
           path: |
@@ -111,7 +111,7 @@ jobs:
     runs-on: ubuntu-latest
     needs: merge
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: Set up R
         uses: r-lib/actions/setup-r@v2
         with: 
@@ -126,13 +126,13 @@ jobs:
             any::data.table
             any::ggplot2
       - name: Download artifacts
-        uses: actions/download-artifact@v3
+        uses: actions/download-artifact@v4
         with:
           name: Data
       - name: Generate figures
         run: Rscript --vanilla tests/IVIMmodels/unit_tests/analyze.r test_output.csv test_duration.csv
       - name: Upload figures
-        uses: actions/upload-artifact@v3
+        uses: actions/upload-artifact@v4
         if: always()
         with:
             name: Figures
@@ -151,7 +151,7 @@ jobs:
     runs-on: ubuntu-latest
     needs: merge
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: Set up R
         uses: r-lib/actions/setup-r@v2
         with: 
@@ -163,7 +163,7 @@ jobs:
             any::tidyverse
             any::assertr
       - name: Download artifacts
-        uses: actions/download-artifact@v3
+        uses: actions/download-artifact@v4
         with:
           name: Data
       - name: Test against previous results
@@ -175,4 +175,4 @@ jobs:
             name: Comparison
             path: |
               test_reference.csv
-              test_results.csv
+              test_results.csv

.github/workflows/unit_test.yml

@@ -18,9 +18,9 @@ jobs:
         #   - os: windows-latest
         #     python-version: "3.7"
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: ${{ matrix.python-version }}
           cache: 'pip'