Spring Boot REST microservice for mapping Fitbit data to Open mHealth
I'm a physician & software developer passionate about building digital health applications that support clinical research, help make healthcare more accessible, and improve health outcomes.
At @StanfordBDHG, I work on @StanfordSpezi, an open-source framework for building modern, interoperable digital health applications, and teach @CS342, a course in building real-world solutions for clinical care and research.
When running in codespaces, i get the following:
vscode ➜ /workspaces/fitbit-to-openmhealth (main) $ ./gradlew bootRun
> Task :bootRun
. ____ _ __ _ _
/\\ / ___'_ __ _ _(_)_ __ __ _ \ \ \ \
( ( )\___ | '_ | '_| | '_ \/ _` | \ \ \ \
\\/ ___)| |_)| | | | | || (_| | ) ) ) )
' |____| .__|_| |_|_| |_\__, | / / / /
=========|_|==============|___/=/_/_/_/
:: Spring Boot :: (v2.5.2)
2021-08-19 15:28:26.830 INFO 3288 --- [ main] c.v.fitbitOMH.FitbitOmhApplication : Starting FitbitOmhApplication using Java 11.0.12 on codespaces_262bd5 with PID 3288 (/workspaces/fitbit-to-openmhealth/build/classes/java/main started by vscode in /workspaces/fitbit-to-openmhealth)
2021-08-19 15:28:26.831 INFO 3288 --- [ main] c.v.fitbitOMH.FitbitOmhApplication : No active profile set, falling back to default profiles: default
2021-08-19 15:28:27.477 INFO 3288 --- [ main] o.s.b.w.embedded.tomcat.TomcatWebServer : Tomcat initialized with port(s): 8080 (http)
2021-08-19 15:28:27.484 INFO 3288 --- [ main] o.apache.catalina.core.StandardService : Starting service [Tomcat]
2021-08-19 15:28:27.484 INFO 3288 --- [ main] org.apache.catalina.core.StandardEngine : Starting Servlet engine: [Apache Tomcat/9.0.48]
2021-08-19 15:28:27.526 INFO 3288 --- [ main] o.a.c.c.C.[Tomcat].[localhost].[/] : Initializing Spring embedded WebApplicationContext
2021-08-19 15:28:27.526 INFO 3288 --- [ main] w.s.c.ServletWebServerApplicationContext : Root WebApplicationContext: initialization completed in 650 ms
2021-08-19 15:28:27.745 INFO 3288 --- [ main] o.s.b.w.embedded.tomcat.TomcatWebServer : Tomcat started on port(s): 8080 (http) with context path ''
2021-08-19 15:28:27.753 INFO 3288 --- [ main] c.v.fitbitOMH.FitbitOmhApplication : Started FitbitOmhApplication in 1.288 seconds (JVM running for 1.563)
2021-08-19 15:28:29.520 INFO 3288 --- [nio-8080-exec-1] o.apache.coyote.http11.Http11Processor : Error parsing HTTP request header
Note: further occurrences of HTTP request parsing errors will be logged at DEBUG level.
java.lang.IllegalArgumentException: Invalid character found in method name [0x160x030x010x0120x010x000x01.0x030x030x81f0xad0xc90x0fG0x080x0dvS0xcd0xc30xa10xe9[10x0c0xd00xc30x8c0xcbt30x080x830xe80xeaa0xa40xff0xa98 ]. HTTP method names must be tokens
at org.apache.coyote.http11.Http11InputBuffer.parseRequestLine(Http11InputBuffer.java:419) ~[tomcat-embed-core-9.0.48.jar:9.0.48]
at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:269) ~[tomcat-embed-core-9.0.48.jar:9.0.48]
at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:65) ~[tomcat-embed-core-9.0.48.jar:9.0.48]
at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:893) ~[tomcat-embed-core-9.0.48.jar:9.0.48]
at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1723) ~[tomcat-embed-core-9.0.48.jar:9.0.48]
at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49) ~[tomcat-embed-core-9.0.48.jar:9.0.48]
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128) ~[na:na]
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628) ~[na:na]
at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) ~[tomcat-embed-core-9.0.48.jar:9.0.48]
at java.base/java.lang.Thread.run(Thread.java:829) ~[na:na]
2021-08-19 15:28:45.978 INFO 3288 --- [nio-8080-exec-3] o.a.c.c.C.[Tomcat].[localhost].[/] : Initializing Spring DispatcherServlet 'dispatcherServlet'
2021-08-19 15:28:45.978 INFO 3288 --- [nio-8080-exec-3] o.s.web.servlet.DispatcherServlet : Initializing Servlet 'dispatcherServlet'
2021-08-19 15:28:45.979 INFO 3288 --- [nio-8080-exec-3] o.s.web.servlet.DispatcherServlet : Completed initialization in 0 ms
it still runs, and this only shows up in codespaces. When i run locally on a dev container, i don't get the error. I also don't see the error when i run it in cloudrun...
When i get my steps from fitbit using the timeseries intraday api:
steps = fitbit.time_series(
"activities/steps", base_date=today, period=arguments["--range"]
)
that looks something like this:
{
"activities-steps": [
{
"dateTime": "2021-08-23",
"value": "4511"
}
],
"activities-steps-intraday": {
"dataset": [
{
"time": "00:00:00",
"value": 0
},
...
this is basicaly giving me a minute by minute step count.
When i convert that using the /step-count/intraday, i got a lot of records. it does look like you are filtering out the zero step count minutes. but min-by-min is probably not that useful. but switching to /step-count/summary, this generates an "internal server error".
$ curl -X POST -H "Content-Type: application/json" -d @./mysteps.json https://fitbit2openmhealth-4srwo7mzta-uc.a.run.app/step-count/summary
{"timestamp":"2021-08-23T15:00:06.935+00:00","status":500,"error":"Internal Server Error","path":"/step-count/summary"}
According to the readme, it says that the input to the /step-count/intraday and /step-count/summary are the same. is that correct?
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