Hamid,
Read the information here:
http://snpeff.sourceforge.net/SnpEff_manual.html#galaxy
--
Adam Brenner
Computer Science, Undergraduate Student
Donald Bren School of Information and Computer Sciences
Research Computing Support
Office of Information Technology
http://www.oit.uci.edu/rcs/
Hi Tevfik,
Adam is right, but even easier assuming it goes smoothly, you should be
able to install an updated version 3.3 of JJ's previous 3.2 wrapper via the
Galaxy admin interface - test toolshed; SNP Analysis;
On Thu, Aug 29, 2013 at 5:45 AM, Guest, Simon
simon.gu...@agresearch.co.nz wrote:
Dear Galaxians,
This email is about difficulties with the current approach for installing
tool dependency binaries from the Galaxy Toolshed, and what might be done to
improve the situation. It comes down to
On Aug 14, 2013, at 8:39 AM, Boaz Shaanan wrote:
Hi,
On my local galaxy installation (updated to the latest version yesterday), it
takes ages (hours!) to upload a fastq files. I attach a report from the the
computer on which galaxy is installed. The fastq file is uploaded from
On Aug 14, 2013, at 7:48 AM, Jurgens de Bruin wrote:
Hi
just to keep things up to date I have the the cluster up and running jobs are
being submitted. Last problem I am facing is:
21: UCSC Main on Pig: refGene (chr18:1-61220071)
error
An error occurred with this dataset: The remote
On Thu, Aug 29, 2013 at 3:36 AM, Peter Cock p.j.a.c...@googlemail.com wrote:
There is a similar but probably larger set of Debian packages
available via Debian-Med and Bio-Linux too. The catch here
is can you install arbitrary versions of a tool in parallel? And
I think the answer sadly is no.
On Aug 26, 2013, at 5:03 AM, Christophe Antoniewski wrote:
Hi everybody,
The python scripts to clean histories, datasets, users etc.. are fine...
However, the records are not really removed from the postgresql database and
as a result, this one gets bigger and bigger with unused records.
On Aug 29, 2013, at 11:50 AM, Nate Coraor wrote:
On Aug 26, 2013, at 5:03 AM, Christophe Antoniewski wrote:
Hi everybody,
The python scripts to clean histories, datasets, users etc.. are fine...
However, the records are not really removed from the postgresql database and
as a result,
Can you get a dump of table sizes for us to compare with?
http://wiki.postgresql.org/wiki/Disk_Usage
On Thu, Aug 29, 2013 at 12:05 PM, Nate Coraor n...@bx.psu.edu wrote:
On Aug 29, 2013, at 11:50 AM, Nate Coraor wrote:
On Aug 26, 2013, at 5:03 AM, Christophe Antoniewski wrote:
Hi
Hello,
I am slightly confused with adding a new genome to my local Galaxy
instance, I am using the recent default branch 10411:c42567f43aa7
(following the documentation at
http://wiki.galaxyproject.org/Admin/Data%20Integration)
I have edited the ~/galaxy-dist/tool-data/all_fasta.loc to add new
Hi Vipin,
On 8/28/13 1:34 PM, Vipin TS wrote:
Hello,
I am slightly confused with adding a new genome to my local Galaxy
instance, I am using the recent default branch 10411:c42567f43aa7
(following the documentation at
http://wiki.galaxyproject.org/Admin/Data%20Integration)
I have edited
Hi Tiffany,
This build is included in the public Main Galaxy instance at
https://main.g2.bx.psu.edu (usegalaxy.org) and in the most current
CloudMain AMI (by default).
This is the full name:
If you are working with a local instance, then the
On Thu, Aug 29, 2013 at 4:17 PM, Guest, Simon simon.gu...@agresearch.co.nz
wrote:
There is a similar but probably larger set of Debian packages
available via Debian-Med and Bio-Linux too. The catch here is can you
install arbitrary versions of a tool in parallel? And I think the
answer
Hi,I am looking how to improve the import of BAM files into galaxy.I often use the Upload tool in the Data Libraries to upload a number of BAM files into galaxy (after recombining several readgroups into a BAM file for the library, which I unfortunately have to do OUTSIDE of galaxy since it cannot
H
i Jen Ricardo,
Thanks for the suggestions. It is resolved now. The problem was due to the
tab delimiter.
In my local workstation the tab was preset to four spaces.
regards, Vipin
Is it not showing up under the list of databases/genomes when you at
these locations:
1 - Get Data -
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