Nicolas:
Do you also happen to have export2fastq converter? Yes, it is simple, but if you have it already we would put into Format conversion section as many people inquired about it.
Thanks!
anton
On Dec 2, 2010, at 6:57 AM, Nicolas Delhomme wrote:
Hi Nate,
Thanks, that did the trick.
Are you interested to have that file format in Galaxy? Just let me know and I'll send you a proper diff of the different files.
Cheers,
Nico
Nicolas Delhomme
High Throughput Functional Genomics Center
European Molecular Biology Laboratory
Tel: +49 6221 387 8310 Email: nicolas.delhomme@embl.de Meyerhofstrasse 1 - Postfach 10.2209 69102 Heidelberg, Germany
On 22 Nov 2010, at 16:21, Nate Coraor wrote:
Nicolas Delhomme wrote:
Hi all,
I do see the see the same, whenever loading export (one of Illumina sequencer output) files (as an admin uploading a directory of files) or when running bowtie/bwa/samtools. I'm wondering if this would have something to do with the Sniffers (i.e. that you're validating the generated files)? Actually as I'm running a local Galaxy instance and am sure that the format are correct, being directly at the source, I would not need such validations. Is there a way to turn that off?
Nico,
If you set the file type on the upload form, the datatype will not be sniffed. In addition, setting the rest of the metadata can be sped up by setting:
set_metadata_externally = True
In universe_wsgi.ini.
--nate
Best,
Nico
Nicolas Delhomme
High Throughput Functional Genomics Center
European Molecular Biology Laboratory
Tel: +49 6221 387 8310 Email: nicolas.delhomme@embl.de Meyerhofstrasse 1 - Postfach 10.2209 69102 Heidelberg, Germany
On 10 Nov 2010, at 21:08, David Hoover wrote:
I've set up a local instance of Galaxy, and have submitted a lastz job on some fake data. It ran for about 3 minutes and then finished, as shown in the logfiles and by system tools like top and ps. However, the web page shows the spinning wheel and yellow box for 10 minutes until the box turned green and wheel stopped spinning.
Why is there such a delay between when the job completes and when the web page shows it is finished? Is there a configuration element I'm missing?
David Hoover Helix Systems Staff http://helix.nih.gov _______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev
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