errors in generate-synthea.sh: Cannot find Java binary

[sdeoras]

Hi, My Ubuntu 20.04 system info is as follows:

$ uname -a
Linux <hostname> 5.10.0-1038-oem #40-Ubuntu SMP Fri Jul 16 15:08:30 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux

$ java --version
openjdk 11.0.11 2021-04-20
OpenJDK Runtime Environment (build 11.0.11+9-Ubuntu-0ubuntu2.20.04)
OpenJDK 64-Bit Server VM (build 11.0.11+9-Ubuntu-0ubuntu2.20.04, mixed mode, sharing)

$ bazel --version
bazel 4.2.0

I am encountering following errors. Any pointers on how to get resolve these? Thanks.

└─ $ ▶ ./generate-synthea.sh $WORKSPACE
~/fhirdata ~/gocode/github.com/google/fhir-examples
Cloning into 'synthea'...

<redacted... lots of lines in between>

BUILD SUCCESSFUL in 1m 20s
4 actionable tasks: 4 executed
~/gocode/github.com/google/fhir-examples
Finished generating Synthea dataset.  Running SplitBundle...
Extracting Bazel installation...
Starting local Bazel server and connecting to it...
ERROR: /home/<username>/.cache/bazel/_bazel_<username>/2884ccfba9ba71fca71c9c77a412dd89/external/local_jdk/BUILD.bazel:3:10: in fail_rule rule @local_jdk//:jdk:
Traceback (most recent call last):
        File "/home/<username>/.cache/bazel/_bazel_<username>/2884ccfba9ba71fca71c9c77a412dd89/external/bazel_tools/tools/jdk/fail_rule.bzl", line 19, column 13, in _fail_rule_impl
                fail("%s %s" % (ctx.attr.header, ctx.attr.message))
Error in fail: Auto-Configuration Error: Cannot find Java binary bin/java in /home/<username>/.cache/bazel/_bazel_<username>/install/96e7556c3bbfa3fa31016b638fdff086/embedded_tools/tools/jdk/nosystemjdk; either correct your JAVA_HOME, PATH or specify embedded Java (e.g. --javabase=@bazel_tools//tools/jdk:remote_jdk11)
INFO: Repository rules_proto instantiated at:
  /home/<username>/gocode/github.com/google/fhir-examples/WORKSPACE:14:23: in <toplevel>
  /home/<username>/.cache/bazel/_bazel_<username>/2884ccfba9ba71fca71c9c77a412dd89/external/com_google_fhir/bazel/dependencies.bzl:37:17: in fhirproto_dependencies
Repository rule http_archive defined at:
  /home/<username>/.cache/bazel/_bazel_<username>/2884ccfba9ba71fca71c9c77a412dd89/external/bazel_tools/tools/build_defs/repo/http.bzl:336:31: in <toplevel>
INFO: Repository remote_java_tools_linux instantiated at:
  /DEFAULT.WORKSPACE.SUFFIX:223:6: in <toplevel>
  /home/<username>/.cache/bazel/_bazel_<username>/2884ccfba9ba71fca71c9c77a412dd89/external/bazel_tools/tools/build_defs/repo/utils.bzl:201:18: in maybe
Repository rule http_archive defined at:
  /home/<username>/.cache/bazel/_bazel_<username>/2884ccfba9ba71fca71c9c77a412dd89/external/bazel_tools/tools/build_defs/repo/http.bzl:336:31: in <toplevel>
INFO: Repository maven instantiated at:
  /home/<username>/gocode/github.com/google/fhir-examples/WORKSPACE:20:20: in <toplevel>
  /home/<username>/.cache/bazel/_bazel_<username>/2884ccfba9ba71fca71c9c77a412dd89/external/com_google_fhir/bazel/workspace.bzl:8:18: in fhirproto_workspace
  /home/<username>/.cache/bazel/_bazel_<username>/2884ccfba9ba71fca71c9c77a412dd89/external/rules_jvm_external/defs.bzl:36:19: in maven_install
Repository rule coursier_fetch defined at:
  /home/<username>/.cache/bazel/_bazel_<username>/2884ccfba9ba71fca71c9c77a412dd89/external/rules_jvm_external/coursier.bzl:559:33: in <toplevel>
ERROR: Analysis of target '@com_google_fhir//java/com/google/fhir/examples:SplitBundle' failed; build aborted: Analysis of target '@local_jdk//:jdk' failed
INFO: Elapsed time: 42.634s
INFO: 0 processes.
FAILED: Build did NOT complete successfully (21 packages loaded, 191 targets configured)
    currently loading: @com_google_fhir//proto/google/fhir/proto/r4/core/resources ... (2 packages)
./generate-synthea.sh: line 42: bazel-bin/external/com_google_fhir/java/com/google/fhir/examples/SplitBundle: No such file or directory
mv: cannot stat '/home/<username>/fhirdata/ndjson/*.schema.json': No such file or directory
mv: cannot stat '/home/<username>/fhirdata/ndjson/*.analytic.ndjson': No such file or directory
Done