Hi Joan, 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 (http://wiki.galaxyproject.org/Admin/Config/Performance/nginx%20Proxy) or apache (http://wiki.galaxyproject.org/Admin/Config/Apache%20Proxy).
Thanks for using Galaxy, Dan On Nov 26, 2012, at 6:11 AM, <[email protected]> <[email protected]> wrote: > 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 > accessing: > http://172.21.104.21:8080/display_application/9e23127bd2c9a880/igv_bam/web_link_main/8d9bcc17f9fede63/data/galaxy_9e23127bd2c9a880.bam<br>Premature > 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 > http://bioinformatics.fcrb.es > +34 93 227 54 00 ext. 4522 > > ___________________________________________________________ > 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: > > http://lists.bx.psu.edu/
___________________________________________________________ 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: http://lists.bx.psu.edu/
