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Xavier Watkins

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Sep 26, 2017, 4:17:51 AM9/26/17

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See below

Hello, the API seems to be broken for requests accepting application/xml header. What is wrong? ------ Error msg-------- <html> <head> <title>Grizzly 2.3.28</title> <style>  </style> </head> <body> <div class="header">Internal Error</div> <div class="body"> <b>javax.servlet.ServletException: org.glassfish.jersey.server.ContainerException: java.lang.NoClassDefFoundError: java/util/zip/DataFormatException</b> <pre> 1: org.glassfish.grizzly.servlet.FilterChainImpl.doFilter(FilterChainImpl.java:151) 2: org.glassfish.grizzly.servlet.FilterChainImpl.invokeFilterChain(FilterChainImpl.java:106) 3: org.glassfish.grizzly.servlet.ServletHandler.doServletService(ServletHandler.java:224) 4: org.glassfish.grizzly.servlet.ServletHandler.service(ServletHandler.java:173) 5: org.glassfish.grizzly.http.server.HttpHandler$1.run(HttpHandler.java:224) 6: org.glassfish.grizzly.threadpool.AbstractThreadPool$Worker.doWork(AbstractThreadPool.java:593) 7: org.glassfish.grizzly.threadpool.AbstractThreadPool$Worker.run(AbstractThreadPool.java:573) 8: java.lang.Thread.run(Thread.java:745) </pre> <b>Root Cause: java.lang.NoClassDefFoundError: java/util/zip/DataFormatException</b> <pre> 1: java.util.zip.InflaterInputStream.read(InflaterInputStream.java:158) 2: java.io.FilterInputStream.read(FilterInputStream.java:133) 3: sun.nio.cs.StreamDecoder.readBytes(StreamDecoder.java:284) 4: sun.nio.cs.StreamDecoder.implRead(StreamDecoder.java:326) 5: sun.nio.cs.StreamDecoder.read(StreamDecoder.java:178) 6: java.io.InputStreamReader.read(InputStreamReader.java:184) 7: java.io.BufferedReader.fill(BufferedReader.java:161) 8: java.io.BufferedReader.readLine(BufferedReader.java:324) 9: java.io.BufferedReader.readLine(BufferedReader.java:389) 10: javax.xml.bind.ContextFinder.find(ContextFinder.java:437) ... 40 more</pre>Please see the log for more detail. </div> <div class="footer">Grizzly 2.3.28</div> </body> </html>

Lukáš Pravda

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Sep 26, 2017, 10:55:25 AM9/26/17

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I'd be actually pretty great to fix it ASAP. As one of our services (http://ncbr.muni.cz/ChannelsDB), which just got accepted and is going to be published within a matter of days relies on the data provided over the API. So I need to know, if that is just some settings thing, which can get easily fixed or should I write JSON parser to retrieve deemed information.

Thank you

Dne úterý 26. září 2017 10:17:51 UTC+2 Xavier Watkins napsal(a):

Edward Turner

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Sep 26, 2017, 11:08:28 AM9/26/17

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Hi Lukáš,

Thank you for getting in touch with us. Please could you send us the URL which produces this error message so that we can try to replicate and investigate the issue you are having?

Kind regards,

Edd

Lukáš Pravda

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Sep 26, 2017, 1:06:12 PM9/26/17

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Hi Edward,

thank you for getting in touch with me. The problem seems to be resolved, as I do not face any troubles right now. Only yesterday evening I noticed that pretty much any requests to the url https://www.ebi.ac.uk/proteins/api/proteins/UNIPROT_ID (e.g https://www.ebi.ac.uk/proteins/api/proteins/P08684) resulted in a failure in case the header included key-value pair Accept-"application/xml". If the "applicatation/json" was set, everything was alright . So for more infrormation you probably need to decode the exception thrown, or check the log.

Anyway it works now :)

Thanks

Lukas

Dne úterý 26. září 2017 17:08:28 UTC+2 Edward Turner napsal(a):

Edward Turner

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Sep 27, 2017, 3:46:26 AM9/27/17

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Hi Lukas,

Great, thanks for the information and we're very glad the issue has been resolved for you, though we'll still look into the underlying cause. Please do let us know if you experience any other problems, and we'll try to help out as soon as we can. For now though, have a good day and best wishes from the UniProt team.

Edd

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