Hi Sebastian,
Is it possible to share an example bam that exhibits this problem on a
Galaxy server I can reach? Also, which version of IGV are you using
(select Help > About... to see the version).
-- Jim
Dear all,
sometimes I encouter a problem trying to load BAM files directly from Galaxy into the IGV
browser. First I am starting the IGV browser locally, then clicking on the appropriate
BAM file and on "display with IGV _local_" in Galaxy. In most cases it works,
but for some reasons not with specific files. The error message says
"Error loading http://_URL-to-file_/galaxy_example.bam: An error occured while
accessing http://_URL-to-file_/galaxy_example.bam
Invalid GZIP header"
What does it mean? And why am I able to download the BAM file and load it from
HDD into the IGV?
The problem comes with all BAM files of one sample cohort, but not with another
(but same sample design and workflow used). Rerunning the workflow doesn't
help...
I would be very thankful for every kind of help!
Best,
Sebastian
Helmholtz Zentrum München
Deutsches Forschungszentrum für Gesundheit und Umwelt (GmbH)
Ingolstädter Landstr. 1
85764 Neuherberg
www.helmholtz-muenchen.de
Aufsichtsratsvorsitzende: MinDir´in Bärbel Brumme-Bothe
Geschäftsführer: Prof. Dr. Günther Wess, Dr. Nikolaus Blum, Dr. Alfons Enhsen
Registergericht: Amtsgericht München HRB 6466
USt-IdNr: DE 129521671
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___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org. Please keep all replies on the list by
using "reply all" in your mail client. For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists,
please use the interface at:
http://lists.bx.psu.edu/
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