As hinted at in the Trello card Greg posted, it could be much simpler if
the citation tag just took a DOI. It appears that the DOI to bibtex
conversion can be done by Crossref:
http://tex.stackexchange.com/questions/6848/automatically-dereference-doi-to-bib
-Will
On Tue, May 27, 2014 at 10:16
I am now able to export capsules from the main/test toolsheds -- thanks
Dave! When attempting to import these capsules into my local toolshed
(latest_2014.06.02
for changeset fb68af9a775a) I receive the following error:
URL: https://galaxy.lygos.com:99/repository/import_capsule
File
painful just to get a tool
development environment setup that makes use of any existing repositories.
thank you for your help,
-Will
On Wed, Jun 11, 2014 at 12:40 PM, Will Holtz who...@lygos.com wrote:
I am now able to export capsules from the main/test toolsheds -- thanks
Dave! When
Postgres generally stores datatime fields in GMT, and then translates them
to the local time zone when generating a query. Check the TimeZone variable
in your postgres.conf.
http://www.postgresql.org/docs/9.3/static/datatype-datetime.html#DATATYPE-TIMEZONES
-Will
On Tue, Jun 17, 2014 at 4:29
in
# share/timezonesets/.
So i assume it should get the time from the ubuntu machine it runs on. I
have not done any configuration to the postgresql database. Only installing
it.
Neil
--
*From:* Will Holtz [who...@lygos.com
email address that maps to my LDAP login (
who...@lygos.com), a long gibberish password, and wholtz for my username.
Thank you for your help Greg.
-Will
On Tue, Jun 17, 2014 at 7:51 PM, Greg Von Kuster g...@bx.psu.edu wrote:
Hello Will,
On Jun 17, 2014, at 6:06 PM, Will Holtz who...@lygos.com
The documentation for the version_command tag doesn't mention it can take
an interpreter option:
https://wiki.galaxyproject.org/Admin/Tools/ToolConfigSyntax#A.3Cversion_command.3E_tag_set
I looked at the code in lib/galaxy/tools/__init__.py to see how this was
implemented. I was surprised to see
I also was able to download quicktree.tar.gz by clicking on the URL in your
message. However, when I manually ftp into ftp.sanger.ac.uk, there is no
/pub4 directory. I'm a bit confused about how those two statements are both
true, but maybe it will help someone else figure this out. Removing the
This should be possible with Apache as the proxy and the mod_auth_pam
Apache module. From a high level, the configuration should be similar to
using mod_authnz_ldap or mod_auth_kerb as documented here:
https://wiki.galaxyproject.org/Admin/Config/ExternalUserDatbases
-Will
On Wed, Oct 1, 2014 at
I successfully did the tool shed bootstrapping with postgresql once. But
beyond that, I don't think I can offer much advice.
-Will
On Thu, Nov 13, 2014 at 7:41 AM, John Chilton jmchil...@gmail.com wrote:
Hey Bruno,
So Greg has moved on new exciting things and I am not sure if there
is
I have a set of galaxy generated bam and bigwig files containing over 600
contigs. When I attempt to view any of these files with trackster (on a local
server running current galaxy-dist) I get the following in my log file:
galaxy.webapps.galaxy.api.datasets ERROR 2014-04-09 17:41:16,063 Error
Hi,
I used the SAM to FASTQ tool to divide78 lines of Illimina paired end
sequences in SAM format to FASTQ format. The read 2 data set works fine, and
I used the FASTQ masker and then FASTQ to FASTA tools.
I went to repeat those steps with the the read 1 data set. It errors with:
Error
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