Prosit error in EncyclopeDIA search in skyline

support
Prosit error in EncyclopeDIA search in skyline n prust  2024-06-20 23:18
 
Hi Skyline team,

I am trying to run an EncyclopeDIA search in skyline but run into issues during the PROSIT prediction.
Do you have any idea what I am doing wrong? I also attached the error message as .txt and search settings.

Cheers,
Nadine

Skyline
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Error
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OK More Info
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pwiz.Skyline.Model.Prosit.PrositException: Status(StatusCode=Unavailable, Detail="GOAWAY received") ---> Grpc.Core.RpcException: Status(StatusCode=Unavailable, Detail="GOAWAY received")
   at System.Runtime.ExceptionServices.ExceptionDispatchInfo.Throw()
   at System.Runtime.CompilerServices.TaskAwaiter.HandleNonSuccessAndDebuggerNotification(Task task)
   at Grpc.Core.Internal.AsyncCall`2.UnaryCall(TRequest msg)
   at Grpc.Core.DefaultCallInvoker.BlockingUnaryCall[TRequest,TResponse](Method`2 method, String host, CallOptions options, TRequest request)
   at Grpc.Core.Interceptors.InterceptingCallInvoker.<BlockingUnaryCall>b__3_0[TRequest,TResponse](TRequest req, ClientInterceptorContext`2 ctx)
   at Grpc.Core.ClientBase.ClientBaseConfiguration.ClientBaseConfigurationInterceptor.BlockingUnaryCall[TRequest,TResponse](TRequest request, ClientInterceptorContext`2 context, BlockingUnaryCallContinuation`2 continuation)
   at Grpc.Core.Interceptors.InterceptingCallInvoker.BlockingUnaryCall[TRequest,TResponse](Method`2 method, String host, CallOptions options, TRequest request)
   at Tensorflow.Serving.PredictionService.PredictionServiceClient.Predict(PredictRequest request, CallOptions options) in C:\proj\skyline_23_1\pwiz_tools\Skyline\ProtocolBuffers\GeneratedCode\PredictionServiceGrpc.cs:line 96
   at Tensorflow.Serving.PredictionService.PredictionServiceClient.Predict(PredictRequest request, Metadata headers, Nullable`1 deadline, CancellationToken cancellationToken) in C:\proj\skyline_23_1\pwiz_tools\Skyline\ProtocolBuffers\GeneratedCode\PredictionServiceGrpc.cs:line 86
   at pwiz.Skyline.Model.Prosit.Models.PrositModel`6.Predict(PredictionServiceClient predictionClient, TPrositIn inputData, CancellationToken token) in C:\proj\skyline_23_1\pwiz_tools\Skyline\Model\Prosit\Models\PrositModel.cs:line 235
   --- End of inner exception stack trace ---
   at pwiz.Skyline.Model.Prosit.Models.PrositModel`6.Predict(PredictionServiceClient predictionClient, TPrositIn inputData, CancellationToken token) in C:\proj\skyline_23_1\pwiz_tools\Skyline\Model\Prosit\Models\PrositModel.cs:line 239
   at pwiz.Skyline.Model.Prosit.Models.PrositModel`6.PredictBatches(PredictionServiceClient predictionClient, IProgressMonitor progressMonitor, IProgressStatus& progressStatus, SrmSettings settings, List`1 inputs, CancellationToken token) in C:\proj\skyline_23_1\pwiz_tools\Skyline\Model\Prosit\Models\PrositModel.cs:line 365
   at pwiz.Skyline.Model.Prosit.Models.PrositHelpers.PredictBatchesFromPrositCsv(String prositCsvFilePath, IProgressMonitor progressMonitor, IProgressStatus& progressStatus, CancellationToken token) in C:\proj\skyline_23_1\pwiz_tools\Skyline\Model\Prosit\Models\PrositModel.cs:line 408
   at pwiz.Skyline.FileUI.PeptideSearch.EncyclopeDiaSearchControl.Search(EncyclopeDiaSettings settings, CancellationTokenSource token, IProgressStatus status) in C:\proj\skyline_23_1\pwiz_tools\Skyline\FileUI\PeptideSearch\EncyclopeDiaSearchDlg.cs:line 632
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Nick Shulman responded:  2024-06-20 23:34
That looks like it might be a temporary problem, and that this would succeed if you tried it again.

It might also be helpful for you to use Skyline-daily instead of Skyline 23.1.
We hope to release Skyline 24.1 in a month or two, and Skyline 24.1 will be very similar to the current Skyline-daily.
Skyline-daily talks to a different Prosit server than Skyline 23.1, so, if there is a server issue, Skyline-daily might not have the same problems.

You can install Skyline-daily by clicking the "Skyline-daily (beta)" button on the main Skyline web page:
https://skyline.ms/project/home/software/Skyline/begin.view

Prosit seems to be working for me in Skyline 23.1.

If you continue to have trouble, you could send us your data files and we could try to figure out what is going wrong.
You can zip up all of your files and upload them here:
https://skyline.ms/files.url
-- Nick
 
n prust responded:  2024-06-21 00:26
Hi Nick,

thanks for the swift reply.

I already tried it a couple of times and get the same error.
Also just tried it using the daily version and getting the same error. I will upload the zipped files. Would be great if you could have a look.

Cheers,
Nadine
 
n prust responded:  2024-06-21 00:30
Hi Nick,

could I actually get a transfer link or something for privacy reasons?

Cheers,
Nadine
 
Nick Shulman responded:  2024-06-21 00:48
I will send you an email directly.