From 73bff5a896dcb2d839656b8b8106a7e20ed416c9 Mon Sep 17 00:00:00 2001
From: Sara JC Gosline <sara.gosline@pnnl.gov>
Date: Tue, 2 Jul 2024 17:12:20 -0700
Subject: [PATCH] Update build.yml

---
 .github/workflows/build.yml | 68 +++++++++++--------------------------
 1 file changed, 19 insertions(+), 49 deletions(-)

diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml
index c729634d..d5aa1c3a 100755
--- a/.github/workflows/build.yml
+++ b/.github/workflows/build.yml
@@ -14,6 +14,7 @@ permissions:
   id-token: write
 
 jobs:
+
 # Placeholder
 #   depmap-docker-build:
 #     runs-on: ubuntu-latest
@@ -62,24 +63,23 @@ jobs:
 #       run: |
 #         docker build -t jjacobson95/hcmi -f build/docker/Dockerfile.hcmi .
 #         docker push jjacobson95/hcmi
+#    beataml-docker-build:
+#      runs-on: ubuntu-latest
+#      environment: build
+#      steps:
+#      - name: Checkout Repo
+#        uses: actions/checkout@v2
+#      - name: Log in to DockerHub
+#        uses: docker/login-action@v3
+#        with:
+#          username: ${{ secrets.DOCKER_USERNAME }}
+#          password: ${{ secrets.DOCKER_TOKEN_SECRET }}
+#      - name: Build and push beataml image
+#        run: |
+#          docker build -t jjacobson95/beataml -f build/docker/Dockerfile.beataml .
+#          docker push jjacobson95/beataml
 
-   beataml-docker-build:
-     runs-on: ubuntu-latest
-     environment: build
-     steps:
-     - name: Checkout Repo
-       uses: actions/checkout@v2
-     - name: Log in to DockerHub
-       uses: docker/login-action@v3
-       with:
-         username: ${{ secrets.DOCKER_USERNAME }}
-         password: ${{ secrets.DOCKER_TOKEN_SECRET }}
-     - name: Build and push beataml image
-       run: |
-         docker build -t jjacobson95/beataml -f build/docker/Dockerfile.beataml .
-         docker push jjacobson95/beataml
-
-#   #placeholder
+# #   #placeholder
 #   mpnst-docker-build:
 #     runs-on: ubuntu-latest
 #     environment: build
@@ -840,34 +840,6 @@ jobs:
 #       - name: Run linkml schema checker
 #         run: bash schema/check_beataml_linkml.sh
 
-#   # build-depmap:
-#   #   if: github.actor != 'github-actions[bot]'
-#   #   needs: [build-depmap-samples]
-#   #   runs-on: ubuntu-20.04
-#   #   environment: build
-#   #   steps:
-#   #     - name: Checkout code DepMap
-#   #       uses: actions/checkout@v2
-#   #     - name: List files cwd before
-#   #       run: ls -lah 
-#   #     - name: Install coderdata
-#   #       run: pip install coderdata
-#   #     - name: Download depmap data from coder data
-#   #       run: coderdata download --prefix depmap
-#   #     - name: List files cwd after
-#   #       run: ls -lah 
-#   #     - name: Copy files from DepMap Container
-#   #       run: |
-#   #         mkdir depmap-files
-#   #         for file in *depmap*sv*; do
-#   #           cp $file depmap-files/$file
-#   #         done
-#   #     - name: Upload artifact for DepMap
-#   #       uses: actions/upload-artifact@v2
-#   #       with:
-#   #         name: depmap-files
-#   #         path: depmap-files
-
 #   build-depmap:
 #     if: github.actor != 'github-actions[bot]'
 #     needs: [build-depmap-samples,build-drugs-depmap-capture-stragglers]
@@ -1308,8 +1280,6 @@ jobs:
 #           git status
 #           git commit -m "Add figshare_latest.yml to docs/_data"
 #           git push
-
-
   # update-package-download-function:
   #   if: github.actor != 'github-actions[bot]'
   #   needs: [upload-to-figshare]
@@ -1458,7 +1428,7 @@ jobs:
         uses: docker/login-action@v2
         with:
           username: ${{ secrets.DOCKERHUB_USERNAME }}
-          password: ${{ secrets.DOCKERHUB_PASSWORD }}
+          password: ${{ secrets.DOCKER_TOKEN_SECRET }}
       - name: Build and push broad sanger omics
         uses: docker/build-push-action@v3
         with:
@@ -1516,4 +1486,4 @@ jobs:
           push: true
           platforms: linux/amd64,linux/arm64	  
   
->>>>>>> 158fe9a (new ci?)
+