ApplicationInsights for Cromwell

coa-helm/Chart.yaml

@@ -1,6 +1,6 @@
 name: cromwell-on-azure
 description: A cromwell deployment designed to run on Azure with Postgres. 
-version: 0.2.239
+version: 0.2.241
 apiVersion: v2
 dependencies:
   - name: terra-batch-libchart

coa-helm/templates/cromwell.yaml

@@ -9,8 +9,16 @@ spec:
     {{ include "coa-helm.labels" $ | nindent 8 }}
     spec:
       containers:
-        - args:
-            - java -Djava.io.tmpdir=/cromwell-tmp/ -Dconfig.file=/configuration/cromwell/cromwell-application.conf -jar /app/cromwell.jar server
+        - env:
+            - name: APPLICATIONINSIGHTS_CONNECTION_STRING
+              value: {{ .Values.config.applicationInsightsConnectionString | quote }}
+          args:
+            - java 
+              -Djava.io.tmpdir=/cromwell-tmp/ 
+              -Dconfig.file=/configuration/cromwell/cromwell-application.conf 
+              -Dlogback.configurationFile=/configuration/cromwell/logback.xml 
+              -jar /app/cromwell.jar 
+              server
           command:
             - /bin/sh
             - -c
@@ -58,6 +66,39 @@ status:
 {{ end }}
 {{ define "coa-helm.cromwell-config" }}
 data:
+  logback.xml: |-
+    <configuration>
+      <!-- Enhanced thread and date reporting. -->
+      <conversionRule
+              conversionWord="et"
+              converterClass="cromwell.core.logging.EnhancedThreadConverter"
+      />
+      <conversionRule
+              conversionWord="ed"
+              converterClass="cromwell.core.logging.EnhancedDateConverter"
+      />
+
+      <!-- We are sending logs to ApplicationInsights, no need to print them to console as well.  -->
+      <appender name="NOP_APPENDER" class="ch.qos.logback.core.helpers.NOPAppender">
+          <encoder>
+              <pattern>%ed{yyyy-MM-dd HH:mm:ss,SSS} %et %-5level - %msg%n</pattern>
+          </encoder>
+      </appender>
+
+      <root level="INFO">
+          <appender-ref ref="NOP_APPENDER" />
+      </root>
+
+      <logger name="liquibase" level="WARN"/>
+      <logger name="com.zaxxer.hikari" level="ERROR"/>
+      <logger name="HikariPool" level="ERROR"/>
+      <logger name="com.google.cloud.hadoop.gcsio.GoogleCloudStorageReadChannel" level="ERROR"/>
+      <logger name="org.semanticweb.owlapi.utilities.Injector" level="ERROR"/>
+
+      <!-- Guilty of logging ERROR under non-erroneous conditions -->
+      <logger name="com.azure.storage.blob.nio" level="OFF"/>
+    </configuration>
+
   cromwell-application.conf: |-
     include required(classpath("application"))
 

cromwell-helm/Chart.yaml

@@ -15,7 +15,7 @@ type: application
 # This is the chart version. This version number should be incremented each time you make changes
 # to the chart and its templates, including the app version.
 # Versions are expected to follow Semantic Versioning (https://semver.org/)
-version: 0.2.239
+version: 0.2.241
 
 dependencies:
   - name: terra-batch-libchart

terra-batch-libchart/values.yaml

@@ -2,7 +2,7 @@ exports:
   common:
     cromwell:
       name: coa-cromwell-svc
-      image: broadinstitute/cromwell:86-90af36d
+      image: broadinstitute/cromwell:86-b9e9d97
       port: 8000
       enabled: true
 
@@ -19,7 +19,7 @@ exports:
     #       repo as the GitHub workflow looks in this file to automatically update the image version
     cbasUI:
       name: cbas-ui
-      image: us.gcr.io/broad-dsp-gcr-public/cbas-ui:0.0.120
+      image: us.gcr.io/broad-dsp-gcr-public/cbas-ui:0.0.121
       conf_file: config.json
       conf_dir: /usr/share/nginx/html
       enabled: true
@@ -28,7 +28,7 @@ exports:
     #       repo as the GitHub workflow looks in this file to automatically update the image version
     cbas:
       name: cbas
-      image: us.gcr.io/broad-dsp-gcr-public/cbas:0.0.123
+      image: us.gcr.io/broad-dsp-gcr-public/cbas:0.0.124
       conf_dir: /etc/conf
       conf_file: cbas.yaml
       enabled: true