Remove deprecated secret decryption scripts and comment out unused steps in the GitHub Actions workflow

Author: adammwilson

.github/decrypt_secret.sh

@@ -47,7 +47,7 @@ jobs:
     runs-on: ubuntu-latest
     container: adamwilsonlab/emma:latest
     env:
-      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+      # GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
       RENV_PATHS_ROOT: ~/.local/share/renv
       ACTIONS_RUNNER_DEBUG: true
     steps:
@@ -57,9 +57,9 @@ jobs:
           lfs: true
       - name: Whitelist directory
         run: git config --global --add safe.directory /__w/emma_envdata/emma_envdata
-      - name: Checkout LFS objects
-        run: git lfs checkout
-        continue-on-error: true
+      # - name: Checkout LFS objects
+      #   run: git lfs checkout
+      #   continue-on-error: true
       - name: Install R Package Dependencies
         run: |-
           Rscript -e "questionr::qscan(list.files(pattern='*.R',recursive=T), load = TRUE, detail = TRUE)" # this scans all scripts and installs any needed packages