Merge pull request #81 from daisybio/fixing_vis

Fixing vis

Author: JudithBernett

.github/workflows/run_tests.yml

@@ -16,14 +16,13 @@ jobs:
       fail-fast: false
       matrix:
         include:
-          - { python-version: "3.11", os: ubuntu-latest, session: "pre-commit" }
-          - { python-version: "3.11", os: ubuntu-latest, session: "safety" }
-          - { python-version: "3.11", os: ubuntu-latest, session: "mypy" }
-          - { python-version: "3.11", os: ubuntu-latest, session: "tests" }
-          - { python-version: "3.11", os: windows-latest, session: "tests" }
-          - { python-version: "3.11", os: ubuntu-latest, session: "typeguard" }
-          - { python-version: "3.11", os: ubuntu-latest, session: "xdoctest" }
-          - { python-version: "3.11", os: ubuntu-latest, session: "docs-build" }
+          - { python-version: "3.12", os: ubuntu-latest, session: "pre-commit" }
+          - { python-version: "3.12", os: ubuntu-latest, session: "mypy" }
+          - { python-version: "3.12", os: ubuntu-latest, session: "tests" }
+          - { python-version: "3.12", os: windows-latest, session: "tests" }
+          - { python-version: "3.12", os: ubuntu-latest, session: "typeguard" }
+          - { python-version: "3.12", os: ubuntu-latest, session: "xdoctest" }
+          - { python-version: "3.12", os: ubuntu-latest, session: "docs-build" }
 
     env:
       NOXSESSION: ${{ matrix.session }}

.github/workflows/safety_scan.yml

@@ -0,0 +1,15 @@
+name: Safety Action
+
+on:
+  push: # Run on every push to any branch
+  pull_request: # Run on new pull requests
+
+jobs:
+  security:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@main
+      - name: Run Safety CLI to check for vulnerabilities
+        uses: pyupio/safety-action@v1
+        with:
+          api-key: ${{ secrets.SAFETY_API_KEY }}

README.rst

@@ -31,6 +31,17 @@ DrEvalPy: Python Cancer Cell Line Drug Response Prediction Suite
    :target: https://github.com/psf/black
    :alt: Black
 
+Origin story
+    *Long ago, the people of science lived in harmony. Researchers collaborated, data flowed freely, and models were tested with integrity.
+    But then, the H-Index Nation attacked.
+    Suddenly, impact factors ruled all, flashy results overshadowed rigorous testing, and biased benchmarks spread like wildfire. Science, once a beacon of knowledge, became clouded by competition and questionable practices.
+    Only a fair and unbiased framework could restore balance.
+    And when the field needed it most—drevalpy was born.
+    A framework designed to test drug response prediction models with fairness and transparency, cutting through bias and restoring the integrity of scientific evaluation.
+    Though the fight against bad practices is long, with drevalpy, balance may yet be restored.*
+
+
+
 Focus on Innovating Your Models — DrEval Handles the Rest!
 -  DrEval is a toolkit that ensures drug response prediction evaluations are statistically sound, biologically meaningful, and reproducible.
 -  Focus on model innovation while using our automated standardized evaluation protocols and preprocessing workflows.