I used BWA on a local galaxy installation (Ubuntu 12.10) to generate an
alignment of my FastQ reads. Now I am trying to use GATK Unified Genotyper
with my own reference sequence. The first time I ran it, I had forgotten to
edit env.sh to show the path to the GATK .jar file. After I fixed that,
Hi,
that seems like an GATK2 error and not wrapper or Galaxy related. Any
chance to use a more recent GATK2 version? I only tested it with GATK
2.7 and 2.8.
Also you may try to
delete /tmp/tmp-gatk-BG9Hkr/dict7357081511697052096.tmp.
Ciao,
Bjoern
P.S. Any feedback regarding the wrapper is
Hello,
I am trying to run the Fetch taxonomic representation tool on Galaxy, but
with the data set that I have printed below, the system will not let me
select column 2 for my GI number. Do you know why this might be and how I
could combat it?
Thank you very much
Carolyn
Hey Ricardo,
Did that fix your issue? Does the problem occur in one of the branches? If
yes, please let me know which one.
Thanks,
Sam
On Wed, Jan 22, 2014 at 10:51 AM, Perez, Ricardo ricky_...@neo.tamu.eduwrote:
Hello Sam,
I believe we are using the default branch.
I will try to change
Hi all,
I am trying to set up my own galaxy server (and I don't know much IT) and
thought that I had my sge working properly, but when I try to load data -- via
manage data libraries on the web interface, I get the following error:
/bin/sh: module: line 1: syntax error: unexpected end of file
I think this is a follow-up to last june's
http://dev.list.galaxyproject.org/proftpd-setting-tt4660329.html question.
I was trying a new test install of galaxy (following instructions on galaxy
website for a local install from galaxy-dist hg source), sitting on a server
with two existing
