From 0f2f560688921f36b627f2038eb73976a99df7b3 Mon Sep 17 00:00:00 2001
From: Nick Croucher <n.croucher@imperial.ac.uk>
Date: Tue, 28 May 2024 09:38:07 +0100
Subject: [PATCH] Add miniconda installation

---
 .github/workflows/build.yml | 10 +++++++++-
 1 file changed, 9 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml
index 44e2114e..583961de 100644
--- a/.github/workflows/build.yml
+++ b/.github/workflows/build.yml
@@ -14,9 +14,17 @@ jobs:
         uses: actions/setup-python@v3
         with:
           python-version: 3.9
+      - name: Set up miniconda
+        steps:
+          - uses: conda-incubator/setup-miniconda@v3
+            with:
+              auto-update-conda: true
+              python-version: 3.9
+          - name: Conda info
+            shell: bash -el {0}
       - name: Install dependencies with conda
         run: |
-            source $CONDA/etc/profile.d/conda.sh && conda env update --file environment.yml
+            sudo chown -R $UID $CONDA && source $CONDA/etc/profile.d/conda.sh && conda env update --file environment.yml
       - name: Run C and python tests
         run: |
             source $CONDA/etc/profile.d/conda.sh && conda activate gubbins_env && FILES=`ls -l1 $CONDA_PREFIX/lib/clang/*/lib/darwin/*`; for clang_dir in $(ls -d1 $CONDA_PREFIX/lib/clang/*); do if [[ ! -d "$clang_dir/lib/darwin" ]]; then mkdir -p $clang_dir/lib/darwin; for clang_file in $(echo $FILES); do ln -s $clang_file $clang_dir/lib/darwin/; done; fi;  done && export PATH=$PATH:/lib/python3.9/site-packages/ && autoreconf -i &&  ./configure  --prefix=$CONDA_PREFIX --exec_prefix $CONDA_PREFIX CFLAGS="-O0 -I${CONDA_PREFIX}/include/" LDFLAGS="-L${CONDA_PREFIX}/lib/ -Wl,-rpath,${CONDA_PREFIX}/lib/" --host=x86_64-apple-darwin --build=x86_64-apple-darwin && make && make install && make check