Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Exception when creating a new workflow #427

Open
kinow opened this issue Jun 14, 2022 · 0 comments
Open

Exception when creating a new workflow #427

kinow opened this issue Jun 14, 2022 · 0 comments

Comments

@kinow
Copy link
Member

kinow commented Jun 14, 2022

Description

When you start CWL Viewer, and import the compile.cwl from the main page, the console shows an exception due to a file that already exists.

We are probably re-creating the image unnecessarily.

image

java.nio.file.FileAlreadyExistsException: /tmp/cwlviewer/a6888236-8b43-4ec0-8c11-7cef3c840b4b.svg
	at java.base/sun.nio.fs.UnixException.translateToIOException(UnixException.java:94)
	at java.base/sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:106)
	at java.base/sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:111)
	at java.base/sun.nio.fs.UnixFileSystemProvider.newByteChannel(UnixFileSystemProvider.java:218)
	at java.base/java.nio.file.spi.FileSystemProvider.newOutputStream(FileSystemProvider.java:484)
	at java.base/java.nio.file.Files.newOutputStream(Files.java:228)
	at java.base/java.nio.file.Files.copy(Files.java:3160)
	at org.commonwl.view.graphviz.GraphVizService.getGraphPath(GraphVizService.java:84)
	at org.commonwl.view.workflow.WorkflowService.getWorkflowGraph(WorkflowService.java:479)
	at org.commonwl.view.workflow.WorkflowController.downloadGraphSvg(WorkflowController.java:282)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:568)
	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.doGet(FrameworkServlet.java:898)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:655)
	at org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:883)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:764)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:227)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:53)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:189)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:100)
	at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:189)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.springframework.web.filter.FormContentFilter.doFilterInternal(FormContentFilter.java:93)
	at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:189)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:201)
	at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117)
	at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:189)
	at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:162)
	at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:197)
	at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:97)
	at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:541)
	at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:135)
	at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:92)
	at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:78)
	at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:360)
	at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:399)
	at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:65)
	at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:890)
	at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1743)
	at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49)
	at org.apache.tomcat.util.threads.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1191)
	at org.apache.tomcat.util.threads.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:659)
	at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61)
	at java.base/java.lang.Thread.run(Thread.java:833)

Expected Behavior

No errors.

Actual Behavior

Possible Fix

Steps to Reproduce

1.Import compile.cwl

Context

Your Environment

  • Version used: main
  • Environment name and version (e.g. Chrome 39, Java 17): Firefox from Ubuntu LTS
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant