Update to kb_sdk_patch

Regular kb_sdk's Docker version is so old tests won't pass on GHA

.github/workflows/kb_sdk_test.yaml

@@ -14,33 +14,20 @@ on:
 jobs:
 
   sdk_tests:
-    runs-on: ubuntu-latest
+    runs-on: ubuntu-24.04
     steps:
 
     - name: Check out GitHub repo
       if: "!contains(github.event.head_commit.message, 'skip ci')"
       uses: actions/checkout@v2
 
-    - name: Check out Actions CI files
-      if: "!contains(github.event.head_commit.message, 'skip ci')"
-      uses: actions/checkout@v2
-      with:
-        repository: 'kbaseapps/kb_sdk_actions'
-        path: 'kb_sdk_actions'
-
-
     - name: Set up test environment
       if: "!contains(github.event.head_commit.message, 'skip ci')"
       shell: bash
       env:
         KBASE_TEST_TOKEN: ${{ secrets.KBASE_TEST_TOKEN }}
       run: |
-        # Verify kb_sdk_actions clone worked
-        test -f "$HOME/kb_sdk_actions/bin/kb-sdk" && echo "CI files cloned"
-        # Pull kb-sdk & create startup script
-        docker pull kbase/kb-sdk
-       
-        sh $GITHUB_WORKSPACE/kb_sdk_actions/bin/make_testdir && echo "Created test_local"
+        sh GHA_scripts/make_testdir && echo "Created test_local"
         test -f "test_local/test.cfg" && echo "Confirmed config exists"
 
     - name: Configure authentication
@@ -55,8 +42,11 @@ jobs:
     - name: Run tests
       if: "!contains(github.event.head_commit.message, 'skip ci')"
       shell: bash
-      env:
-        CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
       run: |
-        sh $GITHUB_WORKSPACE/kb_sdk_actions/bin/kb-sdk test
-        bash <(curl -s https://codecov.io/bash)
+        sh GHA_scripts/kb-sdk test --verbose
+
+    - name: Upload coverage to Codecov
+      uses: codecov/codecov-action@v3
+      with:
+        token: ${{ secrets.CODECOV_TOKEN }}
+        fail_ci_if_error: true

GHA_scripts/kb-sdk

@@ -0,0 +1,12 @@
+#!/bin/sh
+
+# TODO may want to make the image an env var or argument
+
+# See https://github.com/kbaseapps/kb_sdk_actions/blob/master/bin/kb-sdk for source
+
+# Cache the group for the docker file
+if [ ! -e $HOME/.kbsdk.cache ] ; then
+  docker run -i -v /var/run/docker.sock:/var/run/docker.sock --entrypoint ls ghcr.io/kbase/kb_sdk_patch-develop:br-0.0.4 -l /var/run/docker.sock|awk '{print $4}' > $HOME/.kbsdk.cache
+fi
+
+exec docker run -i --rm -v $HOME:$HOME -w $(pwd) -v /var/run/docker.sock:/var/run/docker.sock -e DSHELL=$SHELL --group-add $(cat $HOME/.kbsdk.cache) ghcr.io/kbase/kb_sdk_patch-develop:br-0.0.4 $@

GHA_scripts/make_testdir

@@ -0,0 +1,16 @@
+#!/bin/sh
+
+# TODO may want to make the image an env var or argument
+
+# See https://github.com/kbaseapps/kb_sdk_actions/blob/master/bin/make_testdir for source
+
+# Disable the default `return 1` when creating `test_local`
+set +e
+
+# Cache the group for the docker file
+if [ ! -e $HOME/.kbsdk.cache ] ; then
+  docker run -i -v /var/run/docker.sock:/var/run/docker.sock --entrypoint ls ghcr.io/kbase/kb_sdk_patch-develop:br-0.0.4 -l /var/run/docker.sock|awk '{print $4}' > $HOME/.kbsdk.cache
+fi
+
+exec docker run -i --rm -v $HOME:$HOME -u $(id -u) -w $(pwd) -v /var/run/docker.sock:/var/run/docker.sock  -e DUSER=$USER -e DSHELL=$SHELL --group-add $(cat $HOME/.kbsdk.cache) ghcr.io/kbase/kb_sdk_patch-develop:br-0.0.4 test
+exit