From 2dd07a3ae980f664ff5f266befd527b82c3c8480 Mon Sep 17 00:00:00 2001
From: m-jahn <jahn@mpusp.mpg.de>
Date: Thu, 4 Dec 2025 09:39:34 +0100
Subject: [PATCH 1/4] fix: check if miniconda is present before installation,
 closes #47

---
 action.yml | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/action.yml b/action.yml
index 44ce152..b86b5b1 100644
--- a/action.yml
+++ b/action.yml
@@ -74,6 +74,7 @@ runs:
         EOF
 
     - name: Setup conda
+      if: ${{ !hashFiles('/home/runner/miniconda3/.condarc') }}
       uses: conda-incubator/setup-miniconda@v3
       with:
         channels: conda-forge,bioconda
@@ -81,6 +82,7 @@ runs:
         miniforge-version: latest
         environment-file: .snakemake.environment.yaml
         activate-environment: snakemake
+        installation-dir: /home/runner/miniconda3
 
     - name: Display snakemake version
       shell: bash -el {0}

From c1be8a730d656fa6e84cd4bb80165d317db227c4 Mon Sep 17 00:00:00 2001
From: m-jahn <jahn@mpusp.mpg.de>
Date: Thu, 4 Dec 2025 09:58:49 +0100
Subject: [PATCH 2/4] fix: change conda test file o executable

---
 action.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/action.yml b/action.yml
index b86b5b1..1e1c44c 100644
--- a/action.yml
+++ b/action.yml
@@ -74,7 +74,7 @@ runs:
         EOF
 
     - name: Setup conda
-      if: ${{ !hashFiles('/home/runner/miniconda3/.condarc') }}
+      if: ${{ !hashFiles('/home/runner/miniconda3/condabin/conda') }}
       uses: conda-incubator/setup-miniconda@v3
       with:
         channels: conda-forge,bioconda

From 17d67ca12a39a5e80359078650f454c784272dbc Mon Sep 17 00:00:00 2001
From: m-jahn <jahn@mpusp.mpg.de>
Date: Thu, 4 Dec 2025 11:33:45 +0100
Subject: [PATCH 3/4] fix: test more explicit check

---
 action.yml | 12 +++++++++++-
 1 file changed, 11 insertions(+), 1 deletion(-)

diff --git a/action.yml b/action.yml
index 1e1c44c..10ba81a 100644
--- a/action.yml
+++ b/action.yml
@@ -73,8 +73,18 @@ runs:
           - snakemake ==${{ inputs.snakemake-version }}
         EOF
 
+    - name: Check if miniconda is already installed
+      id: check-miniconda
+      shell: bash -el {0}
+      run: |
+        if [ -d "/home/runner/miniconda3" ]; then
+          echo "installed=true" >> $GITHUB_OUTPUT
+        else
+          echo "installed=false" >> $GITHUB_OUTPUT
+        fi
+
     - name: Setup conda
-      if: ${{ !hashFiles('/home/runner/miniconda3/condabin/conda') }}
+      if: steps.check-miniconda.outputs.installed == 'false'
       uses: conda-incubator/setup-miniconda@v3
       with:
         channels: conda-forge,bioconda

From 772c083aced14818ab51cac4579e1ac68628aacb Mon Sep 17 00:00:00 2001
From: m-jahn <jahn@mpusp.mpg.de>
Date: Thu, 4 Dec 2025 21:04:01 +0100
Subject: [PATCH 4/4] fix: use home env var

---
 action.yml | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/action.yml b/action.yml
index 10ba81a..6eae187 100644
--- a/action.yml
+++ b/action.yml
@@ -77,7 +77,7 @@ runs:
       id: check-miniconda
       shell: bash -el {0}
       run: |
-        if [ -d "/home/runner/miniconda3" ]; then
+        if [ -d "$HOME/miniconda3" ]; then
           echo "installed=true" >> $GITHUB_OUTPUT
         else
           echo "installed=false" >> $GITHUB_OUTPUT
@@ -92,7 +92,6 @@ runs:
         miniforge-version: latest
         environment-file: .snakemake.environment.yaml
         activate-environment: snakemake
-        installation-dir: /home/runner/miniconda3
 
     - name: Display snakemake version
       shell: bash -el {0}