openanalytics/shinyproxy-template

Running Shiny apps in ShinyProxy (minimal variant)

Running Shiny apps in ShinyProxy

This repository explains how to run a Shiny app in ShinyProxy. For simplicity, the R code in this repository is not bundled into a R package. See this demo that uses the same code, but as an R package.

Related demos:

• plain Shiny demo
• Shiny demo using pak
• Shiny demo using r2u
• Shiny demo using renv

Building the Docker image

To pull the image made in this repository from Docker Hub, use

sudo docker pull openanalytics/shinyproxy-shiny-demo-minimal

The relevant Docker Hub repository can be found at https://hub.docker.com/r/openanalytics/shinyproxy-shiny-demo-minimal.

To build the image from the Dockerfile, navigate into the root directory of this repository and run

sudo docker build -t openanalytics/shinyproxy-shiny-demo-minimal .

Running the image for testing purposes outside ShinyProxy can be done using e.g.

sudo docker run -it -p 3838:3838 openanalytics/shinyproxy-shiny-demo-minimal

ShinyProxy Configuration

Create a ShinyProxy configuration file (see application.yml for a complete file), containing:

proxy:
  specs:
    - id: euler
      container-image: openanalytics/shinyproxy-shiny-demo-minimal

References

• ShinyProxy.io
• All demos

(c) Copyright Open Analytics NV, 2016-2024.

shinyproxy-template's Issues

Difference in the shinyproxi doc and the README of this repo

Hi,
There is a difference for the command to build the image between this page: http://www.shinyproxy.io/deploying-apps/ and the README of this repo.
In the doc:
sudo docker build openanalytics/shinyproxy-template .

In this repo:
sudo docker build -t openanalytics/shinyproxy-template .

The first one return an error:
"docker build" requires exactly 1 argument(s).

Apart from this, the doc is clear
thanks

Failed to start container

Hi! I have followed the official ShinyProxy tutorial. Hello-Word and tabset_06 is working file but when trying to open the Euler App I get the following error (I use Linux (ubuntu 16.04) VM from Azure):

Error
Status code: 500

Message: Failed to start container

Stack Trace:
eu.openanalytics.containerproxy.ContainerProxyException: Failed to start container
at eu.openanalytics.containerproxy.backend.AbstractContainerBackend.startProxy(AbstractContainerBackend.java:113)
at eu.openanalytics.containerproxy.service.ProxyService.startProxy(ProxyService.java:213)
at eu.openanalytics.shinyproxy.controllers.AppController.getOrStart(AppController.java:109)
at eu.openanalytics.shinyproxy.controllers.AppController.startApp(AppController.java:68)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.springframework.web.method.support.InvocableHandlerMethod.doInvoke(InvocableHandlerMethod.java:209)
at org.springframework.web.method.support.InvocableHandlerMethod.invokeForRequest(InvocableHandlerMethod.java:136)
at org.springframework.web.servlet.mvc.method.annotation.ServletInvocableHandlerMethod.invokeAndHandle(ServletInvocableHandlerMethod.java:102)
at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.invokeHandlerMethod(RequestMappingHandlerAdapter.java:870)
at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.handleInternal(RequestMappingHandlerAdapter.java:776)
at org.springframework.web.servlet.mvc.method.AbstractHandlerMethodAdapter.handle(AbstractHandlerMethodAdapter.java:87)
at org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:991)
at org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:925)
at org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:978)
at org.springframework.web.servlet.FrameworkServlet.doPost(FrameworkServlet.java:881)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:707)
at org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:855)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:790)
at io.undertow.servlet.handlers.ServletHandler.handleRequest(ServletHandler.java:74)
at io.undertow.servlet.handlers.FilterHandler$FilterChainImpl.doFilter(FilterHandler.java:129)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:320)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:127)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:91)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:119)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:137)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:111)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:170)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:63)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.authentication.www.BasicAuthenticationFilter.doFilterInternal(BasicAuthenticationFilter.java:158)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.authentication.AbstractAuthenticationProcessingFilter.doFilter(AbstractAuthenticationProcessingFilter.java:200)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:116)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.header.HeaderWriterFilter.doFilterInternal(HeaderWriterFilter.java:66)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:105)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.context.request.async.WebAsyncManagerIntegrationFilter.doFilterInternal(WebAsyncManagerIntegrationFilter.java:56)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
at org.springframework.security.web.FilterChainProxy.doFilterInternal(FilterChainProxy.java:215)
at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:178)
at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:357)
at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:270)
at io.undertow.servlet.core.ManagedFilter.doFilter(ManagedFilter.java:61)
at io.undertow.servlet.handlers.FilterHandler$FilterChainImpl.doFilter(FilterHandler.java:131)
at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:99)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107)
at io.undertow.servlet.core.ManagedFilter.doFilter(ManagedFilter.java:61)
at io.undertow.servlet.handlers.FilterHandler$FilterChainImpl.doFilter(FilterHandler.java:131)
at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:200)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107)
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$1.handleRequest(ServletChain.java:64)
at io.undertow.servlet.handlers.ServletDispatchingHandler.handleRequest(ServletDispatchingHandler.java:36)
at io.undertow.server.handlers.PathHandler.handleRequest(PathHandler.java:94)
at eu.openanalytics.containerproxy.util.ProxyMappingManager$ProxyPathHandler.handleRequest(ProxyMappingManager.java:159)
at io.undertow.servlet.handlers.security.SSLInformationAssociationHandler.handleRequest(SSLInformationAssociationHandler.java:131)
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.PredicateHandler.handleRequest(PredicateHandler.java:43)
at io.undertow.servlet.handlers.ServletInitialHandler.handleFirstRequest(ServletInitialHandler.java:292)
at io.undertow.servlet.handlers.ServletInitialHandler.access$100(ServletInitialHandler.java:81)
at io.undertow.servlet.handlers.ServletInitialHandler$2.call(ServletInitialHandler.java:138)
at io.undertow.servlet.handlers.ServletInitialHandler$2.call(ServletInitialHandler.java:135)
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:272)
at io.undertow.servlet.handlers.ServletInitialHandler.access$000(ServletInitialHandler.java:81)
at io.undertow.servlet.handlers.ServletInitialHandler$1.handleRequest(ServletInitialHandler.java:104)
at io.undertow.server.Connectors.executeRootHandler(Connectors.java:336)
at io.undertow.server.HttpServerExchange$1.run(HttpServerExchange.java:830)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
Caused by: com.spotify.docker.client.exceptions.DockerRequestException: Request error: POST http://localhost:2375/containers/create: 400, body: {"message":"No command specified"}

at com.spotify.docker.client.DefaultDockerClient.propagate(DefaultDockerClient.java:2838)
at com.spotify.docker.client.DefaultDockerClient.request(DefaultDockerClient.java:2721)
at com.spotify.docker.client.DefaultDockerClient.createContainer(DefaultDockerClient.java:740)
at com.spotify.docker.client.DefaultDockerClient.createContainer(DefaultDockerClient.java:722)
at eu.openanalytics.containerproxy.backend.docker.DockerEngineBackend.startContainer(DockerEngineBackend.java:83)
at eu.openanalytics.containerproxy.backend.AbstractContainerBackend.doStartProxy(AbstractContainerBackend.java:129)
at eu.openanalytics.containerproxy.backend.AbstractContainerBackend.startProxy(AbstractContainerBackend.java:110)
... 95 more
Caused by: javax.ws.rs.BadRequestException: HTTP 400 Bad Request
at org.glassfish.jersey.client.JerseyInvocation.convertToException(JerseyInvocation.java:1077)
at org.glassfish.jersey.client.JerseyInvocation.translate(JerseyInvocation.java:883)
at org.glassfish.jersey.client.JerseyInvocation.access$500(JerseyInvocation.java:99)
at org.glassfish.jersey.client.JerseyInvocation$2.completed(JerseyInvocation.java:840)
at org.glassfish.jersey.client.ClientRuntime.processResponse(ClientRuntime.java:227)
at org.glassfish.jersey.client.ClientRuntime.access$200(ClientRuntime.java:85)
at org.glassfish.jersey.client.ClientRuntime$2.lambda$response$0(ClientRuntime.java:178)
at org.glassfish.jersey.internal.Errors$1.call(Errors.java:272)
at org.glassfish.jersey.internal.Errors$1.call(Errors.java:268)
at org.glassfish.jersey.internal.Errors.process(Errors.java:316)
at org.glassfish.jersey.internal.Errors.process(Errors.java:298)
at org.glassfish.jersey.internal.Errors.process(Errors.java:268)
at org.glassfish.jersey.process.internal.RequestScope.runInScope(RequestScope.java:312)
at org.glassfish.jersey.client.ClientRuntime$2.response(ClientRuntime.java:178)
at org.glassfish.jersey.apache.connector.ApacheConnector$1.run(ApacheConnector.java:491)
at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
at java.util.concurrent.FutureTask.run(FutureTask.java:266)
at jersey.repackaged.com.google.common.util.concurrent.MoreExecutors$DirectExecutorService.execute(MoreExecutors.java:299)
at java.util.concurrent.AbstractExecutorService.submit(AbstractExecutorService.java:112)
at jersey.repackaged.com.google.common.util.concurrent.AbstractListeningExecutorService.submit(AbstractListeningExecutorService.java:50)
at jersey.repackaged.com.google.common.util.concurrent.AbstractListeningExecutorService.submit(AbstractListeningExecutorService.java:37)
at org.glassfish.jersey.apache.connector.ApacheConnector.apply(ApacheConnector.java:487)
at org.glassfish.jersey.client.ClientRuntime.lambda$null$3(ClientRuntime.java:187)
at org.glassfish.jersey.internal.Errors$1.call(Errors.java:272)
at org.glassfish.jersey.internal.Errors$1.call(Errors.java:268)
at org.glassfish.jersey.internal.Errors.process(Errors.java:316)
at org.glassfish.jersey.internal.Errors.process(Errors.java:298)
at org.glassfish.jersey.internal.Errors.process(Errors.java:268)
at org.glassfish.jersey.process.internal.RequestScope.runInScope(RequestScope.java:312)
at org.glassfish.jersey.client.ClientRuntime.lambda$createRunnableForAsyncProcessing$4(ClientRuntime.java:163)
at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
at java.util.concurrent.FutureTask.run(FutureTask.java:266)
... 3 more

..

Issue with adding the aws s3 library to the Dockerfile

Hi all,
The application that I want hosted on the ShinyProxy requires the r library aw.s3. When I run the application locally, it runs without issues, however, when I add the line RUN R -e "install.packages(c('aws.s3'), repos = 'http://cloudyr.github.io/drat')" to the Dockerfile and try testing the image, I get the the following response: “Warning: Error in library: there is no package called ‘aws.s3’”. When I push this Docker image to my server and try to navigate to its url I get error status code 500 associated with the following Message: Container did not respond in time. Any ideas on what’s causing this and how I can make my application hosted on ShinyProxy work with the aws.s3 library? Thanks in advance!

what makes `getOption("shiny.host")` return 0.0.0.0

When running the application (as in the demo) some setups return NULL while others return 0.0.0.0 when queried with getOption("shiny.host"). I was unable to find how shiny sets this value but I suspect it depends on more than just R or R packages (maybe some javascript dependency?). When I try this in various docker containers I get mixed results (some return NULL while others return 0.0.0.0). Does anyone have any more information on how what influences what the function returns?

As a result, I've started to name host and port parameters explicitly (shiny::runApp('/root/euler', host = "0.0.0.0", port = 3838).

Template won't load on ubuntu 18.04 on a remote server

I cloned this repository:
git clone https://github.com/openanalytics/shinyproxy-template

Installed the deb file:
sudo wget https://www.shinyproxy.io/downloads/shinyproxy_2.3.0_amd64.deb
sudo dpkg -i shinyproxy_2.3.0_amd64.deb

Confirmed that shinyproxy was running:
sudo systemctl status shinyproxy

Successfully built the template:
sudo docker build -t openanalytics/shinyproxy-template .

Confirmed its existence:
sudo docker images

Ran the command:
sudo docker run -it -p 3838:3838 openanalytics/shinyproxy-template

It executed successfully and reported Listening on http://0.0.0.0:3838

Yet, when I navigate to the server's ip and add :3838, I get the following error message:

This site can’t be reached
169.231.235.34 took too long to respond.
Try:

Checking the connection
Checking the proxy and the firewall
Running Windows Network Diagnostics
ERR_CONNECTION_TIMED_OUT

sudo ufw status returns inactive, so it is not a firewall. Why would this not load?

Dockerfile uses libssl1.0.0 which has been replaced by libssl1.1

Build failure due to expired GPG key

Hi,

The GPG key for https://cloud.r-project.org/bin/linux/ubuntu bionic-cran40/ needs to be updated. Adding the following line before the apt-get calls fixes it:

RUN apt-key adv --keyserver keyserver.ubuntu.com --recv-keys E298A3A825C0D65DFD57CBB651716619E084DAB9

I see that you have a similar line in the openanalytics/r-base base image with the old GPG key. It's probably best that it's updated over there.