Hi Carrie,
We are aware of this new issue with the Firefox 23.0.1 update. Using an
alternate browser is recommended to avoid the problem with direct
https-http connections, as several of Galaxy's Get Data tools/sources
are impacted. Our team is reviewing solutions at a priority.
Hopefully
Hi Maria,
This message indicates that an error occurred on the cluster node
processing the job. Normally these are not linked to inputs or tools and
the general solution is to re-run the job. Please give this a try today
- it is possible the error was linked to recent transient server issues.
Hi Tobias,
In general, you can use *'**NGS: Picard (beta) - SAM to FASTQ'* to
extract sequences (convert BAM SAM first), but this tool does not add
in extra sequence based off the reference genome (or pad the associated
quality scores, etc.). I don't know of a Galaxy wrapped tool that does
Hey there,
I am trying to add a custom track of a bed file through Galaxy and i keep
getting this error:
- Error line 325149 of
https://main.g2.bx.psu.edu/root/display_as?id=11632524display_app=ucscauthz_method=display_at:
chrM_rCRS not a recognized sequence (note: sequence names are
Please note, this sequence chrM_rCRS does not exist in the human/hg19
genome browser at UCSC. It is not a recognized sequence.
There is a note about this on the gateway page:
http://genome.ucsc.edu/cgi-bin/hgGateway?db=hg19
See the paragraph titled: Note on chrM
--Hiram
On 9/12/13 1:25 AM,
Hi Jen and other galaxy-users,
I was using Slice BAM tool on Galaxy to get the alignment overlap with the
targeted intervals. After I got the output BAM file, I used flagstat to
get the detailed information of the output BAM file. What I got from
flagstat is as following.
13704486 + 0 in
Hi guys,
I am looking for a de novo RNA-seq workflow that uses trinity. Any idea if
there is one available?
Bests,
Carlos
Carlos Canchaya
ccanch...@gmail.com
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