Dave Walton wrote:
> Could someone who has successfully gotten the IGV tool to work using NGINX as 
> your proxy, tell me if there was anything specific they needed to do with 
> their NGINX or galaxy config to get it working?
Hi Dave,


It's necessary to set up the more advanced configuration under "Sending
files using nginx" on the nginxProxy page in the wiki.  Could you let us
know whether you're using that configuration or just a basic
pass-through proxy?

Thanks,
--nate

> 
> Thanks,
> 
> Dave
> 
> 
> On 4/27/11 9:07 PM, "Dave Walton" <dave.wal...@jax.org> wrote:
> 
> I’m getting this same error and I’m running nginx as a proxy server.  Is 
> there a specfic parameter we should be aware of to allow partial gets?  I 
> don’t see anything in the wiki page for setting up the ProductionServer.
> 
> Thanks,
> 
> Dave
> 
> 
> On 4/27/11 12:33 PM, "Daniel Blankenberg" <d...@bx.psu.edu> wrote:
> 
> Hi Alex,
> 
> Displaying BAM files at external applications usually requires an http server 
> that supports partial gets. Unfortunately, the current lightweight http 
> server that is built into Galaxy does not support these advanced http 
> options.  However, this limitation can be overcome by using a proxy server 
> that is able to handle http1.1 requests. Please see "Using a Proxy server" at 
> https://bitbucket.org/galaxy/galaxy-central/wiki/Config/ProductionServer for 
> help on setting this up.
> 
> Thanks for using Galaxy,
> 
> Dan
> 
> 
> On Apr 27, 2011, at 10:06 AM, Alexander Graf wrote:
> 
> Hello all,
> I just updated our local copy of Galaxy and just wanted to try the new IGV 
> display application.
> When I try to display a BAM file with the local IGV or the web IGV I 
> encounter following error complaining about the Null content-length.
> Has any of you encountered the same problem? Do I miss something?
> Thanks in advance
> 
> Alex
> 
> 
> INFO [2011-04-27 16:00:14,440]  [TrackManager.java:225] [Thread-6]  Loading1 
> resources.
> ERROR [2011-04-27 16:00:14,589]  [SeekableHTTPStream.java:59] [Thread-6]  
> Null content-length for: 
> http://localhost:8080/display_application/a1f8a55a946ee078/igv_bam/local/454edf2520b73a7e/data/galaxy_a1f8a55a946ee078.bam
> ERROR [2011-04-27 16:00:14,590]  [TrackLoader.java:821] [Thread-6]  Error 
> loading sam track
> java.lang.RuntimeException: Error loading file: 
> http://localhost:8080/display_application/a1f8a55a946ee078/igv_bam/local/454edf2520b73a7e/data/galaxy_a1f8a55a946ee078.bam
>  NULL content-length
>     at 
> org.broad.igv.util.SeekableHTTPStream.<init>(SeekableHTTPStream.java:60)
>     at 
> org.broad.igv.util.SeekableStreamFactory.getStreamFor(SeekableStreamFactory.java:42)
>     at 
> org.broad.igv.sam.reader.BAMHttpQueryReader.loadHeader(BAMHttpQueryReader.java:129)
>     at 
> org.broad.igv.sam.reader.BAMHttpQueryReader.getHeader(BAMHttpQueryReader.java:70)
>     at 
> org.broad.igv.sam.reader.BAMHttpQueryReader.getSequenceNames(BAMHttpQueryReader.java:80)
>     at 
> org.broad.igv.sam.reader.CachingQueryReader.getSequenceNames(CachingQueryReader.java:97)
>     at 
> org.broad.igv.sam.AlignmentDataManager.initChrMap(AlignmentDataManager.java:75)
>     at 
> org.broad.igv.sam.AlignmentDataManager.<init>(AlignmentDataManager.java:69)
>     at 
> org.broad.igv.sam.AlignmentDataManager.getDataManager(AlignmentDataManager.java:54)
>     at 
> org.broad.igv.track.TrackLoader.loadAlignmentsTrack(TrackLoader.java:761)
>     at org.broad.igv.track.TrackLoader.load(TrackLoader.java:143)
>     at org.broad.igv.track.TrackManager.load(TrackManager.java:271)
>     at org.broad.igv.track.TrackManager.loadResources(TrackManager.java:241)
>     at org.broad.igv.main.CommandExecutor.loadFiles(CommandExecutor.java:282)
>     at org.broad.igv.main.CommandExecutor.hget(CommandExecutor.java:148)
>     at org.broad.igv.main.CommandExecutor.execute(CommandExecutor.java:88)
>     at org.broad.igv.main.CommandListener.processGet(CommandListener.java:193)
>     at org.broad.igv.main.CommandListener.run(CommandListener.java:93)
>     at java.lang.Thread.run(Thread.java:636)
> ERROR [2011-04-27 16:00:14,592]  [TrackLoader.java:211] [Thread-6]  
> java.lang.RuntimeException: java.lang.RuntimeException: Error loading file: 
> http://localhost:8080/display_application/a1f8a55a946ee078/igv_bam/local/454edf2520b73a7e/data/galaxy_a1f8a55a946ee078.bam
>  NULL content-length
> 
> 
> 
> ___________________________________________________________
> 
>                   Alexander Graf
> 
>     Laboratory of Functional Genome Analysis
>     Gene Center, University of Munich (LMU)
>     Feodor-Lynen-Strasse 25; 81377 Munich; Germany
>     email: g...@lmb.uni-muenchen.de
>     Internet: www.lafuga.de/genomics.htm <http://www.lafuga.de/genomics.htm>
>  ___________________________________________________________
> 
> ___________________________________________________________
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> 
> 

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