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: graf@lmb.uni-muenchen.de
Internet: www.lafuga.de/genomics.htm
___________________________________________________________
___________________________________________________________
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