I'm trying to run RStudio server using ShinyProxy. I can run a container without ShinyProxy fine like this:
docker run -p 80:8787 -e DISABLE_AUTH=true rocker/rstudio
when I navigate to localhost, I can see RStudio server in my browers.
Now, trying to add RStudio server as an application run with Shinyproxy, here is my docker-compose.yml:
version: '3.8'
services:
shinyproxy:
container_name: shinyproxy
image: openanalytics/shinyproxy:latest
volumes:
- '/var/run/docker.sock:/var/run/docker.sock'
- "./application.yml:/opt/shinyproxy/application.yml:z"
networks:
- sp-example-net
ports:
- 80:8080
networks:
sp-example-net:
name: "sp-example-net"
and here is my application.yml:
proxy:
port: 8080
authentication: none
docker:
internal-networking: true
specs:
- id: rstudio
container-image: rocker/rstudio
container-network: sp-example-net
If I run this using docker compose up, I can navigate to localhost and click on the rstudio link to open rstudio server. But then after maybe 5 seconds I get an error that the container failed to start:
Error
Status code: 500
Message: Container failed to start
Stack Trace:
eu.openanalytics.containerproxy.ContainerProxyException: Container failed to start
at eu.openanalytics.containerproxy.service.ProxyService.startProxy(ProxyService.java:283)
at eu.openanalytics.shinyproxy.controllers.AppController.getOrStart(AppController.java:150)
at eu.openanalytics.shinyproxy.controllers.AppController.startApp(AppController.java:91)
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)
at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
at java.base/java.lang.reflect.Method.invoke(Unknown Source)
at org.springframework.web.method.support.InvocableHandlerMethod.doInvoke(InvocableHandlerMethod.java:205)
at org.springframework.web.method.support.InvocableHandlerMethod.invokeForRequest(InvocableHandlerMethod.java:150)
at org.springframework.web.servlet.mvc.method.annotation.ServletInvocableHandlerMethod.invokeAndHandle(ServletInvocableHandlerMethod.java:117)
at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.invokeHandlerMethod(RequestMappingHandlerAdapter.java:895)
at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.handleInternal(RequestMappingHandlerAdapter.java:808)
at org.springframework.web.servlet.mvc.method.AbstractHandlerMethodAdapter.handle(AbstractHandlerMethodAdapter.java:87)
at org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:1067)
at org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:963)
at org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:1006)
at org.springframework.web.servlet.FrameworkServlet.doPost(FrameworkServlet.java:909)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:517)
at org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:883)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:584)
at io.undertow.servlet.handlers.ServletHandler.handleRequest(ServletHandler.java:74)
at io.undertow.servlet.handlers.FilterHandler$FilterChainImpl.doFilter(FilterHandler.java:129)
at eu.openanalytics.containerproxy.util.AppRecoveryFilter.doFilter(AppRecoveryFilter.java:63)
at io.undertow.servlet.core.ManagedFilter.doFilter(ManagedFilter.java:61)
at io.undertow.servlet.handlers.FilterHandler$FilterChainImpl.doFilter(FilterHandler.java:131)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:327)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:115)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:81)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:121)
at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:115)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:126)
at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:81)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:105)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:149)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:63)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at eu.openanalytics.containerproxy.util.AppRecoveryFilter.doFilter(AppRecoveryFilter.java:63)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:103)
at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:89)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.csrf.CsrfFilter.doFilterInternal(CsrfFilter.java:117)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.header.HeaderWriterFilter.doHeadersAfter(HeaderWriterFilter.java:90)
at org.springframework.security.web.header.HeaderWriterFilter.doFilterInternal(HeaderWriterFilter.java:75)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:110)
at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:80)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.context.request.async.WebAsyncManagerIntegrationFilter.doFilterInternal(WebAsyncManagerIntegrationFilter.java:55)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336)
at org.springframework.security.web.FilterChainProxy.doFilterInternal(FilterChainProxy.java:211)
at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:183)
at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:354)
at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:267)
at io.undertow.servlet.core.ManagedFilter.doFilter(ManagedFilter.java:61)
at io.undertow.servlet.handlers.FilterHandler$FilterChainImpl.doFilter(FilterHandler.java:131)
at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:100)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
at io.undertow.servlet.core.ManagedFilter.doFilter(ManagedFilter.java:61)
at io.undertow.servlet.handlers.FilterHandler$FilterChainImpl.doFilter(FilterHandler.java:131)
at org.springframework.boot.actuate.metrics.web.servlet.WebMvcMetricsFilter.doFilterInternal(WebMvcMetricsFilter.java:96)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
at io.undertow.servlet.core.ManagedFilter.doFilter(ManagedFilter.java:61)
at io.undertow.servlet.handlers.FilterHandler$FilterChainImpl.doFilter(FilterHandler.java:131)
at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:201)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
at io.undertow.servlet.core.ManagedFilter.doFilter(ManagedFilter.java:61)
at io.undertow.servlet.handlers.FilterHandler$FilterChainImpl.doFilter(FilterHandler.java:131)
at io.undertow.servlet.handlers.FilterHandler.handleRequest(FilterHandler.java:84)
at io.undertow.servlet.handlers.security.ServletSecurityRoleHandler.handleRequest(ServletSecurityRoleHandler.java:62)
at io.undertow.servlet.handlers.ServletChain$1.handleRequest(ServletChain.java:68)
at io.undertow.servlet.handlers.ServletDispatchingHandler.handleRequest(ServletDispatchingHandler.java:36)
at io.undertow.server.handlers.PathHandler.handleRequest(PathHandler.java:104)
at eu.openanalytics.containerproxy.util.ProxyMappingManager$ProxyPathHandler.handleRequest(ProxyMappingManager.java:160)
at io.undertow.servlet.handlers.RedirectDirHandler.handleRequest(RedirectDirHandler.java:68)
at io.undertow.servlet.handlers.security.SSLInformationAssociationHandler.handleRequest(SSLInformationAssociationHandler.java:117)
at io.undertow.servlet.handlers.security.ServletAuthenticationCallHandler.handleRequest(ServletAuthenticationCallHandler.java:57)
at io.undertow.server.handlers.PredicateHandler.handleRequest(PredicateHandler.java:43)
at io.undertow.security.handlers.AbstractConfidentialityHandler.handleRequest(AbstractConfidentialityHandler.java:46)
at io.undertow.servlet.handlers.security.ServletConfidentialityConstraintHandler.handleRequest(ServletConfidentialityConstraintHandler.java:64)
at io.undertow.security.handlers.AuthenticationMechanismsHandler.handleRequest(AuthenticationMechanismsHandler.java:60)
at io.undertow.servlet.handlers.security.CachedAuthenticatedSessionHandler.handleRequest(CachedAuthenticatedSessionHandler.java:77)
at io.undertow.security.handlers.AbstractSecurityContextAssociationHandler.handleRequest(AbstractSecurityContextAssociationHandler.java:43)
at io.undertow.server.handlers.PredicateHandler.handleRequest(PredicateHandler.java:43)
at io.undertow.server.handlers.SameSiteCookieHandler.handleRequest(SameSiteCookieHandler.java:97)
at io.undertow.servlet.handlers.SendErrorPageHandler.handleRequest(SendErrorPageHandler.java:52)
at io.undertow.server.handlers.PredicateHandler.handleRequest(PredicateHandler.java:43)
at io.undertow.servlet.handlers.ServletInitialHandler.handleFirstRequest(ServletInitialHandler.java:269)
at io.undertow.servlet.handlers.ServletInitialHandler.access$100(ServletInitialHandler.java:78)
at io.undertow.servlet.handlers.ServletInitialHandler$2.call(ServletInitialHandler.java:133)
at io.undertow.servlet.handlers.ServletInitialHandler$2.call(ServletInitialHandler.java:130)
at io.undertow.servlet.core.ServletRequestContextThreadSetupAction$1.call(ServletRequestContextThreadSetupAction.java:48)
at io.undertow.servlet.core.ContextClassLoaderSetupAction$1.call(ContextClassLoaderSetupAction.java:43)
at io.undertow.servlet.handlers.ServletInitialHandler.dispatchRequest(ServletInitialHandler.java:249)
at io.undertow.servlet.handlers.ServletInitialHandler.access$000(ServletInitialHandler.java:78)
at io.undertow.servlet.handlers.ServletInitialHandler$1.handleRequest(ServletInitialHandler.java:99)
at io.undertow.server.Connectors.executeRootHandler(Connectors.java:387)
at io.undertow.server.HttpServerExchange$1.run(HttpServerExchange.java:841)
at org.jboss.threads.ContextClassLoaderSavingRunnable.run(ContextClassLoaderSavingRunnable.java:35)
at org.jboss.threads.EnhancedQueueExecutor.safeRun(EnhancedQueueExecutor.java:2019)
at org.jboss.threads.EnhancedQueueExecutor$ThreadBody.doRunTask(EnhancedQueueExecutor.java:1558)
at org.jboss.threads.EnhancedQueueExecutor$ThreadBody.run(EnhancedQueueExecutor.java:1449)
at org.xnio.XnioWorker$WorkerThreadFactory$1$1.run(XnioWorker.java:1280)
at java.base/java.lang.Thread.run(Unknown Source)
Caused by: com.spotify.docker.client.exceptions.DockerException: java.util.concurrent.ExecutionException: javax.ws.rs.ProcessingException: java.io.IOException: Permission denied
at com.spotify.docker.client.DefaultDockerClient.propagate(DefaultDockerClient.java:2848)
at com.spotify.docker.client.DefaultDockerClient.request(DefaultDockerClient.java:2723)
at com.spotify.docker.client.DefaultDockerClient.createContainer(DefaultDockerClient.java:742)
at com.spotify.docker.client.DefaultDockerClient.createContainer(DefaultDockerClient.java:724)
at eu.openanalytics.containerproxy.backend.docker.DockerEngineBackend.startContainer(DockerEngineBackend.java:99)
at eu.openanalytics.containerproxy.backend.AbstractContainerBackend.doStartProxy(AbstractContainerBackend.java:163)
at eu.openanalytics.containerproxy.backend.AbstractContainerBackend.startProxy(AbstractContainerBackend.java:129)
at eu.openanalytics.containerproxy.service.ProxyService.startProxy(ProxyService.java:279)
... 112 more
Caused by: java.util.concurrent.ExecutionException: javax.ws.rs.ProcessingException: java.io.IOException: Permission denied
at java.base/java.util.concurrent.CompletableFuture.reportGet(Unknown Source)
at java.base/java.util.concurrent.CompletableFuture.get(Unknown Source)
at com.spotify.docker.client.DefaultDockerClient.request(DefaultDockerClient.java:2721)
... 118 more
Caused by: javax.ws.rs.ProcessingException: java.io.IOException: Permission denied
at org.glassfish.jersey.apache.connector.ApacheConnector.apply(ApacheConnector.java:531)
at org.glassfish.jersey.apache.connector.ApacheConnector.apply(ApacheConnector.java:538)
at org.glassfish.jersey.client.ClientRuntime.lambda$null$6(ClientRuntime.java:182)
at org.glassfish.jersey.internal.Errors$1.call(Errors.java:248)
at org.glassfish.jersey.internal.Errors$1.call(Errors.java:244)
at org.glassfish.jersey.internal.Errors.process(Errors.java:292)
at org.glassfish.jersey.internal.Errors.process(Errors.java:274)
at org.glassfish.jersey.internal.Errors.process(Errors.java:244)
at org.glassfish.jersey.process.internal.RequestScope.runInScope(RequestScope.java:288)
at org.glassfish.jersey.client.ClientRuntime.lambda$createRunnableForAsyncProcessing$7(ClientRuntime.java:156)
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Unknown Source)
at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
... 1 more
Caused by: java.io.IOException: Permission denied
at jnr.unixsocket.UnixSocketChannel.doConnect(UnixSocketChannel.java:127)
at jnr.unixsocket.UnixSocketChannel.connect(UnixSocketChannel.java:136)
at jnr.unixsocket.UnixSocketChannel.connect(UnixSocketChannel.java:223)
at com.spotify.docker.client.UnixConnectionSocketFactory.connectSocket(UnixConnectionSocketFactory.java:85)
at org.apache.http.impl.conn.DefaultHttpClientConnectionOperator.connect(DefaultHttpClientConnectionOperator.java:142)
at org.apache.http.impl.conn.PoolingHttpClientConnectionManager.connect(PoolingHttpClientConnectionManager.java:376)
at org.apache.http.impl.execchain.MainClientExec.establishRoute(MainClientExec.java:393)
at org.apache.http.impl.execchain.MainClientExec.execute(MainClientExec.java:236)
at org.apache.http.impl.execchain.ProtocolExec.execute(ProtocolExec.java:186)
at org.apache.http.impl.execchain.RetryExec.execute(RetryExec.java:89)
at org.apache.http.impl.execchain.RedirectExec.execute(RedirectExec.java:110)
at org.apache.http.impl.client.InternalHttpClient.doExecute(InternalHttpClient.java:185)
at org.apache.http.impl.client.CloseableHttpClient.execute(CloseableHttpClient.java:72)
at org.glassfish.jersey.apache.connector.ApacheConnector.apply(ApacheConnector.java:483)
I'm running this on a Mac with M1 Pro.
The documentation suggests this could be caused by the firewall blocking ShinyProxy from connecting to the docker API:
When the docker service is up and running, the most common cause is that the firewall rules on the machine prevent ShinyProxy to connect to the docker API. In that case, it is worthwhile to disable the firewall temporarily and to check whether ShinyProxy is then able to start a container.
It suggests turning off the firewall, but I'm not able to turn the firewall completely off on my Mac.
