For IGV and most external displays that work on BAM and other larger seekable
file formats (bigwig, bigbed, etc.) you'll need to use and configure a proxy
server for your local Galaxy instance that provides byte-range request
capabilities, such as nginx
Thanks for using Galaxy,
On Nov 26, 2012, at 6:11 AM, <prota...@clinic.ub.es> <prota...@clinic.ub.es>
> Hi all,
> I’m having problems when I click to visualize one BAM file from galaxy to
> IGV version 2.1.24. I’ve tried the local and also the web display options
> but I have the same problem. I have tried also to download first the bam file
> from galaxy and then loading into IGV manually and it works. I also have
> tried to modify the .jnlp generated but it does not work.
> IGV shows the next error message:
> ERROR [2012-11-26 11:44:54,591] [IGV.java:1555] [pool-1-thread-1]
> net.sf.samtools.util.RuntimeEOFException: Premature EOF; BinaryCodec in
> readmode; streamed file (filename not available)
> ERROR [2012-11-26 11:44:54,592] [IGV.java:1494] [pool-1-thread-1] Error
> loading tracks
> org.broad.igv.exceptions.DataLoadException: An error occurred while
> EOF; BinaryCodec in readmode; streamed file (filename not available)
> Thanks for your help.
> Joan Protasio, Bioinformatician & Software Engineer
> Bioinformatics Platform
> August Pi i Sunyer Biomedical Research Institute (IDIBAPS)
> C/ Rosselló 153, Barcelona
> +34 93 227 54 00 ext. 4522
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Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at: