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macarthur-lab / matchbox

matchbox server for the Matchmaker Exchange
BSD 3-Clause "New" or "Revised" License
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java.io.IOException: Server returned HTTP response code: 400 for URL: http://gnomad-api.broadinstitute.org #54

Open northwestwitch opened 5 years ago

northwestwitch commented 5 years ago

Hi, I'm testing MatchBox and I've found this error. This is likely to have an impact on the genotype score: Full error message:

java.io.IOException: Server returned HTTP response code: 400 for URL: http://gnomad-api.broadinstitute.org at sun.net.www.protocol.http.HttpURLConnection.getInputStream0(HttpURLConnection.java:1876) ~[na:1.8.0_144] at sun.net.www.protocol.http.HttpURLConnection.getInputStream(HttpURLConnection.java:1474) ~[na:1.8.0_144] at org.broadinstitute.macarthurlab.matchbox.network.Communication.postToNonAuthenticatedHttpUrl(Communication.java:168) ~[classes!/:0.1.0] at org.broadinstitute.macarthurlab.matchbox.match.GenotypeSimilarityServiceImpl.findAlleFreqInNormPop(GenotypeSimilarityServiceImpl.java:239) [classes!/:0.1.0] at org.broadinstitute.macarthurlab.matchbox.match.GenotypeSimilarityServiceImpl.findNormalPopulationProbabilitiesFromGnomad(GenotypeSimilarityServiceImpl.java:184) [classes!/:0.1.0] at org.broadinstitute.macarthurlab.matchbox.match.GenotypeSimilarityServiceImpl.scoreGenotypes(GenotypeSimilarityServiceImpl.java:113) [classes!/:0.1.0] at org.broadinstitute.macarthurlab.matchbox.match.MatchServiceImpl.match(MatchServiceImpl.java:70) [classes!/:0.1.0] at org.broadinstitute.macarthurlab.matchbox.search.MatchmakerSearchImpl.searchInLocalDatabaseOnly(MatchmakerSearchImpl.java:96) [classes!/:0.1.0] at org.broadinstitute.macarthurlab.matchbox.controllers.MatchController.match(MatchController.java:81) [classes!/:0.1.0] at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) ~[na:1.8.0_144] at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) ~[na:1.8.0_144] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.8.0_144] at java.lang.reflect.Method.invoke(Method.java:498) ~[na:1.8.0_144] at org.springframework.web.method.support.InvocableHandlerMethod.doInvoke(InvocableHandlerMethod.java:205) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.method.support.InvocableHandlerMethod.invokeForRequest(InvocableHandlerMethod.java:133) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.servlet.mvc.method.annotation.ServletInvocableHandlerMethod.invokeAndHandle(ServletInvocableHandlerMethod.java:97) [spring-webmvc-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.invokeHandlerMethod(RequestMappingHandlerAdapter.java:827) [spring-webmvc-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.handleInternal(RequestMappingHandlerAdapter.java:738) [spring-webmvc-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.servlet.mvc.method.AbstractHandlerMethodAdapter.handle(AbstractHandlerMethodAdapter.java:85) [spring-webmvc-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:967) [spring-webmvc-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:901) [spring-webmvc-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:970) [spring-webmvc-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.servlet.FrameworkServlet.doPost(FrameworkServlet.java:872) [spring-webmvc-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at javax.servlet.http.HttpServlet.service(HttpServlet.java:661) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:846) [spring-webmvc-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at javax.servlet.http.HttpServlet.service(HttpServlet.java:742) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:231) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52) [tomcat-embed-websocket-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.broadinstitute.macarthurlab.matchbox.authentication.AuthenticationFilter.doFilter(AuthenticationFilter.java:92) [classes!/:0.1.0] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:99) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.springframework.web.filter.HttpPutFormContentFilter.doFilterInternal(HttpPutFormContentFilter.java:105) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.springframework.web.filter.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:81) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:197) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107) [spring-web-4.3.9.RELEASE.jar!/:4.3.9.RELEASE] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:198) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:96) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:478) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:140) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:80) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:87) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:342) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:799) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:66) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:861) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1455) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) [na:1.8.0_144] at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) [na:1.8.0_144] at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) [tomcat-embed-core-8.5.15.jar!/:8.5.15] at java.lang.Thread.run(Thread.java:748) [na:1.8.0_144]