More path fixes for installation

Bioconductor · Jan 8, 2025 · db700d0 · db700d0
1 parent 0435e79
commit db700d0
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Showing 4 changed files with 7 additions and 5 deletions.
diff --git a/.github/workflows/create_endpoint.yaml b/.github/workflows/create_endpoint.yaml
@@ -39,5 +39,6 @@ jobs:
       
       - name: Create endpoint
         run: |
-          sudo bash install_hubsingest.sh
+          bash install_hubsingest.sh
+          export PATH="$PATH:$BIOC_HUBSINGEST_PATH"
           hubsingest create_endpoint "${{ inputs.username }}" "${{ inputs.size }}" ${{ secrets[env.SECRET_NAME] }}
diff --git a/.github/workflows/delete_endpoint.yaml b/.github/workflows/delete_endpoint.yaml
@@ -31,4 +31,5 @@ jobs:
       - name: Delete endpoint
         run: |
           sudo bash install_hubsingest.sh
+          export PATH="$PATH:$BIOC_HUBSINGEST_PATH"
           hubsingest delete_endpoint "${{ inputs.username }}"
diff --git a/install_hubsingest.sh b/install_hubsingest.sh
@@ -1,10 +1,10 @@
 #!/bin/bash
 HUBSINGESTPATH=${BIOC_HUBSINGEST_PATH:-/usr/local/bin/hubsingest}
-mkdir -p $HUBSINGESTPATH
+mkdir -p $HUBSINGESTPATH/scripts
 
 curl -o $HUBSINGESTPATH/hubsingest https://raw.githubusercontent.com/Bioconductor/hubsingest/refs/heads/devel/hubsingest
-curl -o $HUBSINGESTPATH/hubsingest_create_endpoint.sh https://raw.githubusercontent.com/Bioconductor/hubsingest/refs/heads/devel/scripts/hubsingest_create_endpoint.sh
-curl -o $HUBSINGESTPATH/hubsingest_delete_endpoint.sh https://raw.githubusercontent.com/Bioconductor/hubsingest/refs/heads/devel/scripts/hubsingest_delete_endpoint.sh
+curl -o $HUBSINGESTPATH/scripts/hubsingest_create_endpoint.sh https://raw.githubusercontent.com/Bioconductor/hubsingest/refs/heads/devel/scripts/hubsingest_create_endpoint.sh
+curl -o $HUBSINGESTPATH/scripts/hubsingest_delete_endpoint.sh https://raw.githubusercontent.com/Bioconductor/hubsingest/refs/heads/devel/scripts/hubsingest_delete_endpoint.sh
 
 chmod +x $HUBSINGESTPATH/hubsingest
 echo 'In order to persist the path, you may want to run, and/or add to your `rc` files:'

diff --git a/scripts/hubsingest_create_endpoint.sh b/scripts/hubsingest_create_endpoint.sh
@@ -115,4 +115,4 @@ EOF
 
 kubectl create ns $PLACEHOLDERUSER-ns
 kubectl apply -f /tmp/hubsingest.yaml -n $PLACEHOLDERUSER-ns
-#rm /tmp/hubsingest.yaml
+rm /tmp/hubsingest.yaml