From 9e6eff6c79013ffa8ef767ad767e7f581f5c8809 Mon Sep 17 00:00:00 2001
From: thalassemia <cheah_sean@yahoo.com>
Date: Sat, 20 Jul 2024 13:34:07 +0800
Subject: [PATCH] Try more fixes

---
 .github/workflows/pr_tests.yml | 8 +++++++-
 doc/index.rst                  | 7 ++++++-
 2 files changed, 13 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/pr_tests.yml b/.github/workflows/pr_tests.yml
index 4dda062fa..addfd5bb8 100644
--- a/.github/workflows/pr_tests.yml
+++ b/.github/workflows/pr_tests.yml
@@ -33,6 +33,9 @@ jobs:
     - name: Compile Cython components
       run: |
         make clean compile
+    - name: Set PYTHONPATH
+      run: |
+        echo "PYTHONPATH=." >> $GITHUB_ENV
     - name: Test ParCa reproducibility
       run: |
         python runscripts/parca.py -c 3 -o out/parca_1
@@ -67,10 +70,13 @@ jobs:
         pip install -r requirements.txt
     - name: Install nextflow
       run: |
-        curl -s https://get.sdkman.io | bash
+        curl -s https://get.nextflow.io | bash
     - name: Compile Cython components
       run: |
         make clean compile
+    - name: Set PYTHONPATH
+      run: |
+        echo "PYTHONPATH=." >> $GITHUB_ENV
     - name: Two generations
       run: |
         python runscripts/workflow.py --config ecoli/composites/ecoli_configs/two_generations.json
diff --git a/doc/index.rst b/doc/index.rst
index 59c3d5503..2b1cb609f 100644
--- a/doc/index.rst
+++ b/doc/index.rst
@@ -2,7 +2,12 @@ Welcome to Vivarium *E. coli*'s documentation!
 ==============================================
 
 Vivarium *E. coli* is a port of the |text|_ to the `Vivarium framework <https://vivarium-collective.github.io>`_.
-We recommend new users read through the sections below in order.
+For more scientific details about the model, refer to the
+`documentation <https://github.com/CovertLab/wcEcoli/tree/master/docs/processes>`_
+for the model as well its corresponding publication
+(`10.1126/science.aav3751 <https://www.science.org/doi/10.1126/science.aav3751>`_).
+This website covers how the model was implemented using Vivarium and describes the user interface
+for developing and running the model. We recommend new users read through the sections below in order.
 
 ..
    Comment: We need to use text substitution because ReST does not