From cb4dc28ac59b2e42c8e5bfbe63498b0acccc242b Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 09:40:32 +0200
Subject: [PATCH 01/23] Debug

---
 .github/workflows/build-icetray.yml | 4 ++++
 1 file changed, 4 insertions(+)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 43963408b..7eb37459e 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -18,6 +18,10 @@ jobs:
     container: icecube/icetray:combo-stable
     steps:
       - uses: actions/checkout@v2
+      - name: Debug
+        run: |
+          pwd
+          ls -lart .
       - name: Install package
         uses: ./.github/actions/install-cpu
         with:

From 7b3ef103b5757a5d54b44e4e623ebdb24e01e976 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 09:46:36 +0200
Subject: [PATCH 02/23] Debug

---
 .github/workflows/build-icetray.yml | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 7eb37459e..06c6a668f 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -22,6 +22,8 @@ jobs:
         run: |
           pwd
           ls -lart .
+          ls -lart requirements/
+          ls -lart requirements/torch_cpu.txt
       - name: Install package
         uses: ./.github/actions/install-cpu
         with:

From b4366350dade6fdecfaed2c6929616ffeab892cf Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 09:52:27 +0200
Subject: [PATCH 03/23] Debug

---
 .github/workflows/build-icetray.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 06c6a668f..222c1df57 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -27,7 +27,7 @@ jobs:
       - name: Install package
         uses: ./.github/actions/install-cpu
         with:
-          editable: true
+          editable: false
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From aea2b11cf2bdf997a7ad87e399a7f94338160eb0 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 10:07:43 +0200
Subject: [PATCH 04/23] Debug

---
 .github/workflows/build-icetray.yml | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 222c1df57..3525ae6d0 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -27,7 +27,8 @@ jobs:
       - name: Install package
         uses: ./.github/actions/install-cpu
         with:
-          editable: false
+          editable: true
+          user: true
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From ea2f4504abdec0c0a0c1382a4f35312227266f70 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 10:13:00 +0200
Subject: [PATCH 05/23] Debug

---
 .github/actions/install-cpu/action.yml | 9 +++++++--
 1 file changed, 7 insertions(+), 2 deletions(-)

diff --git a/.github/actions/install-cpu/action.yml b/.github/actions/install-cpu/action.yml
index 4e3da9ee4..1d0324dd8 100644
--- a/.github/actions/install-cpu/action.yml
+++ b/.github/actions/install-cpu/action.yml
@@ -6,6 +6,10 @@ inputs:
     description: "Whether to install graphnet as editable"
     required: true
     default: false
+  user:
+    description: "Whether to install graphnet as user"
+    required: true
+    default: false
   extras:
     description: "Extras flags for pip installation of graphnet"
     required: true
@@ -16,8 +20,9 @@ runs:
   steps:
     - name: Infer installation flags
       run: |
-        PIP_FLAGS=`[[ ${{ inputs.editable }} =~ (T|t)rue ]] && printf "%s\n" "-e" || echo " "`
-        echo "PIP_FLAGS=${PIP_FLAGS}" >> $GITHUB_ENV
+        PIP_FLAG_EDITABLE=`[[ ${{ inputs.editable }} =~ (T|t)rue ]] && printf "%s\n" "-e " || echo " "`
+        PIP_FLAG_USER=`[[ ${{ inputs.user }} =~ (T|t)rue ]] && printf "%s\n" "--user " || echo " "`
+        echo "PIP_FLAGS=${PIP_FLAG_EDITABLE}${PIP_FLAG_USER}" >> $GITHUB_ENV
       shell: bash
     - name: Install dependencies
       run: |

From e8a334fd6f73070721f8923a7b02cd44c4514ac0 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 10:29:18 +0200
Subject: [PATCH 06/23] Debug

---
 .github/actions/install-cpu/action.yml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/.github/actions/install-cpu/action.yml b/.github/actions/install-cpu/action.yml
index 1d0324dd8..100fe63a7 100644
--- a/.github/actions/install-cpu/action.yml
+++ b/.github/actions/install-cpu/action.yml
@@ -22,7 +22,7 @@ runs:
       run: |
         PIP_FLAG_EDITABLE=`[[ ${{ inputs.editable }} =~ (T|t)rue ]] && printf "%s\n" "-e " || echo " "`
         PIP_FLAG_USER=`[[ ${{ inputs.user }} =~ (T|t)rue ]] && printf "%s\n" "--user " || echo " "`
-        echo "PIP_FLAGS=${PIP_FLAG_EDITABLE}${PIP_FLAG_USER}" >> $GITHUB_ENV
+        echo "PIP_FLAGS=${PIP_FLAG_USER}${PIP_FLAG_EDITABLE}" >> $GITHUB_ENV
       shell: bash
     - name: Install dependencies
       run: |
@@ -31,5 +31,5 @@ runs:
       shell: bash
     - name: Install package
       run: |
-        pip install ${{ env.PIP_FLAGS }} -r requirements/torch_cpu.txt .${{ inputs.extras }}
+        pip install -r requirements/torch_cpu.txt ${{ env.PIP_FLAGS }} .${{ inputs.extras }}
       shell: bash

From 1835b03f65895547d38a714e41e3a2e791ff0bc1 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 10:35:22 +0200
Subject: [PATCH 07/23] Debug

---
 .github/workflows/build-icetray.yml | 1 -
 1 file changed, 1 deletion(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 3525ae6d0..06c6a668f 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -28,7 +28,6 @@ jobs:
         uses: ./.github/actions/install-cpu
         with:
           editable: true
-          user: true
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From 675a1e091b2e6da2e52499758d5d55e9e1e46b14 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 10:47:03 +0200
Subject: [PATCH 08/23] Debug

---
 .github/workflows/build-icetray.yml | 4 ++++
 1 file changed, 4 insertions(+)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 06c6a668f..9671b9e41 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -24,10 +24,14 @@ jobs:
           ls -lart .
           ls -lart requirements/
           ls -lart requirements/torch_cpu.txt
+      - name: Update PATH
+        run: |
+          echo "PATH=~/.local/bin:$PATH" >> $GITHUB_ENV
       - name: Install package
         uses: ./.github/actions/install-cpu
         with:
           editable: true
+          user: true
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From 5384f7bae557450eebcbe741556fe0dcf423682c Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 10:52:42 +0200
Subject: [PATCH 09/23] Debug

---
 .github/workflows/build-icetray.yml | 5 ++++-
 1 file changed, 4 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 9671b9e41..0e23a53aa 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -26,12 +26,15 @@ jobs:
           ls -lart requirements/torch_cpu.txt
       - name: Update PATH
         run: |
-          echo "PATH=~/.local/bin:$PATH" >> $GITHUB_ENV
+          echo "PATH=$HOME/.local/bin:$PATH" >> $GITHUB_ENV
       - name: Install package
         uses: ./.github/actions/install-cpu
         with:
           editable: true
           user: true
+      - name: Debug
+        run: |
+          ls -lart $HOME/.local/bin
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From 8d3de19c3b6dda0a976204a7c1da91df5662a5e6 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 11:18:21 +0200
Subject: [PATCH 10/23] Debug

---
 .github/workflows/build-icetray.yml | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 0e23a53aa..db3e8c124 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -24,6 +24,7 @@ jobs:
           ls -lart .
           ls -lart requirements/
           ls -lart requirements/torch_cpu.txt
+          pip list
       - name: Update PATH
         run: |
           echo "PATH=$HOME/.local/bin:$PATH" >> $GITHUB_ENV
@@ -32,9 +33,9 @@ jobs:
         with:
           editable: true
           user: true
-      - name: Debug
+      - name: Upgrade astropy, already installed on icecube/icetray [https://github.com/astropy/astropy/issues/12534]
         run: |
-          ls -lart $HOME/.local/bin
+          pip install --user --upgrade astropy
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From 0debc7a70c0eecd8b56dcda410e2dfd33d450d0f Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 11:27:50 +0200
Subject: [PATCH 11/23] Remove debug statements

---
 .github/workflows/build-icetray.yml | 9 +--------
 1 file changed, 1 insertion(+), 8 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index db3e8c124..ed090d896 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -18,14 +18,7 @@ jobs:
     container: icecube/icetray:combo-stable
     steps:
       - uses: actions/checkout@v2
-      - name: Debug
-        run: |
-          pwd
-          ls -lart .
-          ls -lart requirements/
-          ls -lart requirements/torch_cpu.txt
-          pip list
-      - name: Update PATH
+      - name: Update PATH to make scripts available, since we're installing graphnet as user
         run: |
           echo "PATH=$HOME/.local/bin:$PATH" >> $GITHUB_ENV
       - name: Install package

From 4be243921c47292db6ff7fa9e51d34dc52a7db3e Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 11:40:07 +0200
Subject: [PATCH 12/23] Switch away from user installation

---
 .github/workflows/build-icetray.yml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 62ac7fbbb..5a2861946 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -25,10 +25,10 @@ jobs:
         uses: ./.github/actions/install-cpu
         with:
           editable: true
-          user: true
+          user: false
       - name: Upgrade astropy, already installed on icecube/icetray [https://github.com/astropy/astropy/issues/12534]
         run: |
-          pip install --user --upgrade astropy
+          pip install --upgrade astropy
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From d72f3dd4c5fdabd63d0b2c8d0403de9932a82bd8 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 11:51:06 +0200
Subject: [PATCH 13/23] Upgrade PyYAML

---
 .github/workflows/build-icetray.yml | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 5a2861946..b00b78908 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -26,9 +26,10 @@ jobs:
         with:
           editable: true
           user: false
-      - name: Upgrade astropy, already installed on icecube/icetray [https://github.com/astropy/astropy/issues/12534]
+      - name: Upgrade packages already installed on icecube/icetray
         run: |
-          pip install --upgrade astropy
+          pip install --upgrade astropy  # Installed version incompatible with numpy 1.23.0 [https://github.com/astropy/astropy/issues/12534]
+          pip install --ignore-installed PyYAML  # Distutils installed [https://github.com/pypa/pip/issues/5247]
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From ac8855245d2d096c7cd6a891e40322addaed78bb Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 11:55:27 +0200
Subject: [PATCH 14/23] Change order

---
 .github/workflows/build-icetray.yml | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index b00b78908..c973726a7 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -21,15 +21,15 @@ jobs:
       - name: Update PATH to make scripts available, since we're installing graphnet as user
         run: |
           echo "PATH=$HOME/.local/bin:$PATH" >> $GITHUB_ENV
+      - name: Upgrade packages already installed on icecube/icetray
+        run: |
+          pip install --upgrade astropy  # Installed version incompatible with numpy 1.23.0 [https://github.com/astropy/astropy/issues/12534]
+          pip install --ignore-installed PyYAML  # Distutils installed [https://github.com/pypa/pip/issues/5247]
       - name: Install package
         uses: ./.github/actions/install-cpu
         with:
           editable: true
           user: false
-      - name: Upgrade packages already installed on icecube/icetray
-        run: |
-          pip install --upgrade astropy  # Installed version incompatible with numpy 1.23.0 [https://github.com/astropy/astropy/issues/12534]
-          pip install --ignore-installed PyYAML  # Distutils installed [https://github.com/pypa/pip/issues/5247]
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From bd589b721caa57836c845a2778f040aa5a4ca698 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 12:01:00 +0200
Subject: [PATCH 15/23] Remove update to PATH

---
 .github/workflows/build-icetray.yml | 4 ----
 1 file changed, 4 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index c973726a7..2229d6d7d 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -18,9 +18,6 @@ jobs:
     container: icecube/icetray:combo-stable
     steps:
       - uses: actions/checkout@v2
-      - name: Update PATH to make scripts available, since we're installing graphnet as user
-        run: |
-          echo "PATH=$HOME/.local/bin:$PATH" >> $GITHUB_ENV
       - name: Upgrade packages already installed on icecube/icetray
         run: |
           pip install --upgrade astropy  # Installed version incompatible with numpy 1.23.0 [https://github.com/astropy/astropy/issues/12534]
@@ -29,7 +26,6 @@ jobs:
         uses: ./.github/actions/install-cpu
         with:
           editable: true
-          user: false
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV

From e4481f9efb50864d19c1993fad59a502d0c60596 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 12:18:44 +0200
Subject: [PATCH 16/23] Update if-statement

---
 .github/workflows/build-icetray.yml | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 2229d6d7d..d5f70d1e8 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -29,6 +29,7 @@ jobs:
       - name: Check secrets
         run: |
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV
+          echo "CC_TEST_REPORTER_ID=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV
       - name: Retrieve test data
         if: "${{ env.PUB_WISC_USERNAME != '' }}"
         run: |
@@ -64,7 +65,7 @@ jobs:
           git config --global --add safe.directory /__w/graphnet/graphnet
       - name: Publish code coverage
         uses: paambaati/codeclimate-action@v3.0.0
-        if: "${{ env.CC_TEST_REPORTER_ID != '' }} && ${{ env.PUB_WISC_USERNAME != '' }}"
+        if: "${{ (env.PUB_WISC_USERNAME != '') && (env.CC_TEST_REPORTER_ID != '') }}"
         env:
           CC_TEST_REPORTER_ID: ${{ secrets.CODECLIMATE_TEST_REPORTER_ID }}
         with:

From a56f19aa17ec3f4cf675335461f3ffe6ebc64ed4 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 12:30:40 +0200
Subject: [PATCH 17/23] Make build-icetray conditional on cobalt credentials

---
 .github/workflows/build-icetray.yml | 20 ++++++++++++++++++++
 1 file changed, 20 insertions(+)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index d5f70d1e8..dba23103b 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -13,7 +13,27 @@ on:
 
 # A workflow run is made up of one or more jobs that can run sequentially or in parallel
 jobs:
+  has-cobalt-credentials:
+    name: Check if Cobalt credentials were set on secrets
+    runs-on: ubuntu-latest
+    outputs:
+      has_credentials: ${{ steps.setvar.outputs.has_credentials }}
+    steps:
+      - id: setvar
+        run: |
+         if [[ "${{ secrets.PUB_WISC_USERNAME }}" != "" && \
+               "${{ secrets.secrets.PUB_WISC_PASSWORD }}" != "" ]]; \
+         then
+           echo "Credentials to access Cobalt found"
+           echo "::set-output name=has_credentials::true"
+         else
+           echo "Credentials to access Cobalt not found"
+           echo "::set-output name=has_credentials::false"
+         fi
+
   build-icetray:
+    needs: [ has-cobalt-credentials ]
+    if: ${{ needs.has-cobalt-credentials.outputs.has_credentials == 'true' }}
     runs-on: ubuntu-latest
     container: icecube/icetray:combo-stable
     steps:

From 692c62e53b79e2867900054ddc16c80ac220b679 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 12:33:36 +0200
Subject: [PATCH 18/23] Update naming

---
 .github/workflows/build-icetray.yml | 14 +++++++-------
 1 file changed, 7 insertions(+), 7 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index dba23103b..19255c100 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -13,16 +13,16 @@ on:
 
 # A workflow run is made up of one or more jobs that can run sequentially or in parallel
 jobs:
-  has-cobalt-credentials:
-    name: Check if Cobalt credentials were set on secrets
+  check-cobalt-credentials:
+    description: Check if Cobalt credentials were set on secrets
     runs-on: ubuntu-latest
     outputs:
-      has_credentials: ${{ steps.setvar.outputs.has_credentials }}
+      has-credentials: ${{ steps.setvar.outputs.has-credentials }}
     steps:
-      - id: setvar
+      - name: Check secrets
         run: |
          if [[ "${{ secrets.PUB_WISC_USERNAME }}" != "" && \
-               "${{ secrets.secrets.PUB_WISC_PASSWORD }}" != "" ]]; \
+               "${{ secrets.PUB_WISC_PASSWORD }}" != "" ]]; \
          then
            echo "Credentials to access Cobalt found"
            echo "::set-output name=has_credentials::true"
@@ -32,8 +32,8 @@ jobs:
          fi
 
   build-icetray:
-    needs: [ has-cobalt-credentials ]
-    if: ${{ needs.has-cobalt-credentials.outputs.has_credentials == 'true' }}
+    needs: [ check-cobalt-credentials ]
+    if: ${{ needs.check-cobalt-credentials.outputs.has-credentials == 'true' }}
     runs-on: ubuntu-latest
     container: icecube/icetray:combo-stable
     steps:

From f96b74a0e33d925511c63f562addaf1382c95767 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 12:36:27 +0200
Subject: [PATCH 19/23] Update naming and add job for CodeClimate credentials

---
 .github/workflows/build-icetray.yml | 26 +++++++++++++++++++++-----
 1 file changed, 21 insertions(+), 5 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 19255c100..62374d55b 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -13,8 +13,8 @@ on:
 
 # A workflow run is made up of one or more jobs that can run sequentially or in parallel
 jobs:
+
   check-cobalt-credentials:
-    description: Check if Cobalt credentials were set on secrets
     runs-on: ubuntu-latest
     outputs:
       has-credentials: ${{ steps.setvar.outputs.has-credentials }}
@@ -25,14 +25,30 @@ jobs:
                "${{ secrets.PUB_WISC_PASSWORD }}" != "" ]]; \
          then
            echo "Credentials to access Cobalt found"
-           echo "::set-output name=has_credentials::true"
+           echo "::set-output name=has-credentials::true"
          else
            echo "Credentials to access Cobalt not found"
-           echo "::set-output name=has_credentials::false"
+           echo "::set-output name=has-credentials::false"
+         fi
+
+  check-codeclimate-credentials:
+    runs-on: ubuntu-latest
+    outputs:
+      has-credentials: ${{ steps.setvar.outputs.has-credentials }}
+    steps:
+      - name: Check secrets
+        run: |
+         if [[ "${{ secrets.CODECLIMATE_TEST_REPORTER_ID }}" != "" ]]; \
+         then
+           echo "Credentials to access CodeClimate found"
+           echo "::set-output name=has-credentials::true"
+         else
+           echo "Credentials to access CodeClimate not found"
+           echo "::set-output name=has-credentials::false"
          fi
 
   build-icetray:
-    needs: [ check-cobalt-credentials ]
+    needs: [ check-cobalt-credentials, check-codeclimate-credentials ]
     if: ${{ needs.check-cobalt-credentials.outputs.has-credentials == 'true' }}
     runs-on: ubuntu-latest
     container: icecube/icetray:combo-stable
@@ -85,7 +101,7 @@ jobs:
           git config --global --add safe.directory /__w/graphnet/graphnet
       - name: Publish code coverage
         uses: paambaati/codeclimate-action@v3.0.0
-        if: "${{ (env.PUB_WISC_USERNAME != '') && (env.CC_TEST_REPORTER_ID != '') }}"
+        if: ${{ needs.check-codeclimate-credentials.outputs.has-credentials == 'true' }}
         env:
           CC_TEST_REPORTER_ID: ${{ secrets.CODECLIMATE_TEST_REPORTER_ID }}
         with:

From 245161f957c799934b97aa2fa50d3229c1845da3 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 12:38:55 +0200
Subject: [PATCH 20/23] Remove curly braces and unnecessary if-statements

---
 .github/workflows/build-icetray.yml | 7 ++-----
 1 file changed, 2 insertions(+), 5 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 62374d55b..4c8e5dab9 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -49,7 +49,7 @@ jobs:
 
   build-icetray:
     needs: [ check-cobalt-credentials, check-codeclimate-credentials ]
-    if: ${{ needs.check-cobalt-credentials.outputs.has-credentials == 'true' }}
+    if: needs.check-cobalt-credentials.outputs.has-credentials == 'true'
     runs-on: ubuntu-latest
     container: icecube/icetray:combo-stable
     steps:
@@ -67,7 +67,6 @@ jobs:
           echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV
           echo "CC_TEST_REPORTER_ID=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV
       - name: Retrieve test data
-        if: "${{ env.PUB_WISC_USERNAME != '' }}"
         run: |
           # Create test data directory
           mkdir -p $TEST_DATA_DIR
@@ -91,17 +90,15 @@ jobs:
           MD5HASH: 80006a6d58338eb8ea153d2b7b02c0a1
         shell: bash
       - name: Run unit tests and generate coverage report
-        if: "${{ env.PUB_WISC_USERNAME != '' }}"
         run: |
           coverage run --source=graphnet -m pytest tests/
           coverage xml -o coverage.xml
       - name: Work around permission issue
-        if: "${{ env.PUB_WISC_USERNAME != '' }}"
         run: |
           git config --global --add safe.directory /__w/graphnet/graphnet
       - name: Publish code coverage
         uses: paambaati/codeclimate-action@v3.0.0
-        if: ${{ needs.check-codeclimate-credentials.outputs.has-credentials == 'true' }}
+        if: needs.check-codeclimate-credentials.outputs.has-credentials == 'true'
         env:
           CC_TEST_REPORTER_ID: ${{ secrets.CODECLIMATE_TEST_REPORTER_ID }}
         with:

From 1fd2249727650fddf2d0395c3da1a3d543cdea49 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 12:40:08 +0200
Subject: [PATCH 21/23] Switch to underscore

---
 .github/workflows/build-icetray.yml | 16 ++++++++--------
 1 file changed, 8 insertions(+), 8 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 4c8e5dab9..bee66e0d9 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -17,7 +17,7 @@ jobs:
   check-cobalt-credentials:
     runs-on: ubuntu-latest
     outputs:
-      has-credentials: ${{ steps.setvar.outputs.has-credentials }}
+      has_credentials: ${{ steps.setvar.outputs.has_credentials }}
     steps:
       - name: Check secrets
         run: |
@@ -25,31 +25,31 @@ jobs:
                "${{ secrets.PUB_WISC_PASSWORD }}" != "" ]]; \
          then
            echo "Credentials to access Cobalt found"
-           echo "::set-output name=has-credentials::true"
+           echo "::set-output name=has_credentials::true"
          else
            echo "Credentials to access Cobalt not found"
-           echo "::set-output name=has-credentials::false"
+           echo "::set-output name=has_credentials::false"
          fi
 
   check-codeclimate-credentials:
     runs-on: ubuntu-latest
     outputs:
-      has-credentials: ${{ steps.setvar.outputs.has-credentials }}
+      has_credentials: ${{ steps.setvar.outputs.has_credentials }}
     steps:
       - name: Check secrets
         run: |
          if [[ "${{ secrets.CODECLIMATE_TEST_REPORTER_ID }}" != "" ]]; \
          then
            echo "Credentials to access CodeClimate found"
-           echo "::set-output name=has-credentials::true"
+           echo "::set-output name=has_credentials::true"
          else
            echo "Credentials to access CodeClimate not found"
-           echo "::set-output name=has-credentials::false"
+           echo "::set-output name=has_credentials::false"
          fi
 
   build-icetray:
     needs: [ check-cobalt-credentials, check-codeclimate-credentials ]
-    if: needs.check-cobalt-credentials.outputs.has-credentials == 'true'
+    if: needs.check-cobalt-credentials.outputs.has_credentials == 'true'
     runs-on: ubuntu-latest
     container: icecube/icetray:combo-stable
     steps:
@@ -98,7 +98,7 @@ jobs:
           git config --global --add safe.directory /__w/graphnet/graphnet
       - name: Publish code coverage
         uses: paambaati/codeclimate-action@v3.0.0
-        if: needs.check-codeclimate-credentials.outputs.has-credentials == 'true'
+        if: needs.check-codeclimate-credentials.outputs.has_credentials == 'true'
         env:
           CC_TEST_REPORTER_ID: ${{ secrets.CODECLIMATE_TEST_REPORTER_ID }}
         with:

From fb14d94aeb4c0c6a142ff80f32c5330b262d8cc8 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 12:42:04 +0200
Subject: [PATCH 22/23] Map output of step to output of job

---
 .github/workflows/build-icetray.yml | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index bee66e0d9..84f756371 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -20,6 +20,7 @@ jobs:
       has_credentials: ${{ steps.setvar.outputs.has_credentials }}
     steps:
       - name: Check secrets
+        id: setvar
         run: |
          if [[ "${{ secrets.PUB_WISC_USERNAME }}" != "" && \
                "${{ secrets.PUB_WISC_PASSWORD }}" != "" ]]; \
@@ -37,6 +38,7 @@ jobs:
       has_credentials: ${{ steps.setvar.outputs.has_credentials }}
     steps:
       - name: Check secrets
+        id: setvar
         run: |
          if [[ "${{ secrets.CODECLIMATE_TEST_REPORTER_ID }}" != "" ]]; \
          then

From 4049faec912397e11ff7f7ce1121712b5d9e1f7f Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20S=C3=B8gaard?= <andreas.sogaard@gmail.com>
Date: Thu, 23 Jun 2022 12:50:07 +0200
Subject: [PATCH 23/23] Add another secret to check, and remove unused step

---
 .github/workflows/build-icetray.yml | 7 ++-----
 1 file changed, 2 insertions(+), 5 deletions(-)

diff --git a/.github/workflows/build-icetray.yml b/.github/workflows/build-icetray.yml
index 84f756371..f85afcdbf 100644
--- a/.github/workflows/build-icetray.yml
+++ b/.github/workflows/build-icetray.yml
@@ -22,7 +22,8 @@ jobs:
       - name: Check secrets
         id: setvar
         run: |
-         if [[ "${{ secrets.PUB_WISC_USERNAME }}" != "" && \
+         if [[ "${{ secrets.PUB_WISC_HOST }}" != "" && \
+               "${{ secrets.PUB_WISC_USERNAME }}" != "" && \
                "${{ secrets.PUB_WISC_PASSWORD }}" != "" ]]; \
          then
            echo "Credentials to access Cobalt found"
@@ -64,10 +65,6 @@ jobs:
         uses: ./.github/actions/install-cpu
         with:
           editable: true
-      - name: Check secrets
-        run: |
-          echo "PUB_WISC_USERNAME=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV
-          echo "CC_TEST_REPORTER_ID=${{ secrets.PUB_WISC_USERNAME }}" >> $GITHUB_ENV
       - name: Retrieve test data
         run: |
           # Create test data directory