This would be easy to implement, but could adversely affect reproducibility.
If a repository containing datatypes always had only a single installable
revision (i.e., the chagelog tip), then any datatypes defined in an early
changeset revision that are removed in a later changeset revision woul
I wasn't aware of a scenario where the value of dir could be None, so thanks
for pointing this out. It should be fixed in 14088:23f0c41b1cd7
Greg Von Kuster
On Jul 17, 2014, at 8:15 AM, Nicolas Lapalu
wrote:
> Hi Greg,
>
> not in the current, in version "2014-05-14"
t;
> (This does not help with suites of very closely related datatypes -
> like different
> kinds of BLAST database.)
>
> Peter
>
> On Thu, Jul 17, 2014 at 6:35 PM, Greg Von Kuster wrote:
>> This would be easy to implement, but could adversely affect reproducibility
Please see my comments below.
On Jul 20, 2014, at 3:22 PM, Peter Cock wrote:
> On Sun, Jul 20, 2014 at 6:23 PM, Björn Grüning wrote:
>> Hi,
>>
>> single datatype definitions only work if you haven’t defined any converters.
>> Let's assume I have a datatype X and want to ship a X -> Y converter
cently installed one right?
>
> It would also resolve this https://trello.com/c/oTq2Kewd problem - where
> unsniffable binary datatypes are treated as sniffiable if there was ever an
> installed version that was some sniff-able datatype.
>
> -John
>
> On Jul 17,
Hi Björn,
On Jul 22, 2014, at 6:01 PM, Björn Grüning wrote:
> Hi Greg,
>
> thanks for the clarification. Please see my comments below.
>
>> On Jul 20, 2014, at 3:22 PM, Peter Cock wrote:
>>
>>> On Sun, Jul 20, 2014 at 6:23 PM, Björn Grüning wrote:
Hi,
single datatype defini
ool Shed's guid identifier for
tools. I haven't thought too much about whether this would pose backward
compatibility issues or not. Discussion is welcomed on this.
Greg Von Kuster
On Jul 22, 2014, at 7:19 PM, Greg Von Kuster wrote:
> Hi Björn,
>
>
> On Jul 22,
ed to the stable branch when it is
created for the upcoming Galaxy release.
Thanks very much,
Greg Von Kuster
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Both Galaxy Tool Sheds have been updated with this fix.
Greg
On Jul 30, 2014, at 7:14 AM, Peter Cock wrote:
> Thanks John - is there any point/benefit to re-uploading
> my tool once the fix is live on the Tool Shed?
>
> i.e. Was it a harmless warning?
>
> Peter
>
>
> On Wed, Jul 30, 2014 at
Yes, it looks like metadata just needs to be regenerated on the affected
repositories. Let me know if doing so uncovers something else.
Greg
On Jul 30, 2014, at 7:20 AM, John Chilton wrote:
> ... that might be a Greg question. The tool shed isn't going to use
> the citation information in any
Hi Eric,
Sorry for the inconvenience. The tool shed server was out of space. I've
corrected the problem and have successfully installed repositories into my
local Galaxy instance. Please try again and let us know if you encounter
problems.
Greg Von Kuster
On Aug 6, 2014, at 10:
Hi Iry,
Sorry for the inconvenience. The tool shed server was out of space - I've
corrected the problem and have successfully installed repositories. Please try
again and let us know if you encounter problems.
Thanks!
Greg Von Kuster
On Aug 6, 2014, at 12:20 PM, Iry Witham wrote:
s well. I feel that Galaxy is far from reaching
its peak and that its future remains very bright. I look forward to seeing how
far it will go.
Warm regards to each of you,
Greg Von Kuster
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ed it sooner.
Greg Von Kuster
On Jul 27, 2011, at 2:08 PM, Glen Beane wrote:
> I should preface this by saying we are running a galaxy-dist that is a couple
> months old now (we are planning on updating soon), but here is an annoying
> issue we are seeing managing data library permiss
ML files will
simply be the Galaxy tool config, the syntax of which is defined on our wiki at
http://wiki.g2.bx.psu.edu/Admin/Tools/Tool%20Config%20Syntax
Thanks very much for you interest in the tool shed,
Greg Von Kuster
On Aug 2, 2011, at 10:36 PM, Nikhil Joshi wrote:
> Hi all,
>
&
ine 17)
>
> Can you reproduce this? Should I file a bug?
>
> Looking at Konrad's XML file, perhaps the tool doesn't like the space
> in the first help line?
> (star)(star)Interproscan(space)(star)(star)
>
> I've not installed the XML file locally to see how
hon code in the RequestsGrid class in
~/lib/galaxy/web/controllers/requests_common.py.
Good luck, and thanks for using Galaxy,
Greg Von Kuster
Sequencing Requests
Create new request
Advanced Search
NameDescription Samples TypeLast Updated ↑ State
No Items
For 0
ition to the drop down in the top menu bar)
>
> Thank you very much for any help
>
> Regards, Hans
> ___________
> Please keep all replies on the list by using "reply all"
> in your mail client. To manage your subscriptio
Hello Sashi,
Look at our tool wikis at http://wiki.g2.bx.psu.edu/Admin/Tools
You probably want to base your tool config file on
~/tools/data-source/ucsc_tablebrowser.xml.
Greg Von kuster
On Aug 24, 2011, at 9:12 AM, shashi shekhar wrote:
> hi,
>
> I have application , i want to
t
>
> thanks for reply
>
> On Wed, Aug 24, 2011 at 6:57 PM, Greg Von Kuster wrote:
> Hello Sashi,
>
> Look at our tool wikis at http://wiki.g2.bx.psu.edu/Admin/Tools
>
> You probably want to base your tool config file on
> ~/tools/data-source/ucsc_tablebrowser.xml.
&g
Shashi,
You may find this wiki useful as well - sorry I missed it in my initial
response.
http://wiki.g2.bx.psu.edu/Admin/Internals/Data%20Sources
On Aug 24, 2011, at 12:15 PM, Greg Von Kuster wrote:
> Hello Shashi,
> On Aug 24, 2011, at 11:55 AM, shashi shekhar wrote:
>
>
edu/Admin/Tools/Tool%20Config%20Syntax#A.3Crequirements.3E_tag_set
>
> Thanks!
>
> Best,
> Dongjun ___
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> and o
Hello Steve,
Thanks for making this available. If you could email me the script, I'll
include it in the ~/contrib directory in the Galaxy distribution.
Greg Von Kuster
On Sep 2, 2011, at 3:20 AM, Steve Taylor wrote:
> Hi,
>
> We have written a tool that we call gls ("gala
Hello Nik,
See our wiki at
http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Purge%20Histories%20and%20Datasets
Greg Von Kuster
On Sep 2, 2011, at 6:43 PM, Nikhil Joshi wrote:
> Hi all,
>
> How does galaxy handle deletion of files? I mean when I delete a file from
> my
by using "reply all"
> in your mail client. To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>
> http://lists.bx.psu.edu/
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
__
Shashi,
Probably the best place to start is the upload_library_dataset method in
~/lib/galaxy/web/controllers/library_common.py.
good luck,
Greg Von Kuster
On Sep 8, 2011, at 6:42 AM, shashi shekhar wrote:
> Hi,
>
> In my local instance of Galaxy ,I want to make change in "
Hello Alex,
This issue was the result of a configuration error that should now be
corrected. Please let us know if you encounter further issues.
thanks for reporting this,
Greg Von Kuster
On Sep 9, 2011, at 12:41 PM, Alex R Bigelow wrote:
> Hi,
> I am a new developer interested in w
instances will
install them from the Galaxy tool shed. This same process will be used for
populating our main Galaxy instance here at Penn State with tools. So for now,
please upload your tool to the tool shed.
Thanks again,
Greg Von Kuster
On Sep 9, 2011, at 4:08 PM, Dongjun Chung wrote
cally create all of the tables for
you.
Greg Von Kuster
On Sep 14, 2011, at 7:35 PM, Alex R Bigelow wrote:
> Hi,
> I am trying to install a local instance of Galaxy with an infobright mysql
> server; I created a database called "galaxy" (the user is also "galaxy," a
Alex,
I've created the following ticket for this issue as it looks to be a bug with
Galaxy / mysql. You can follow the ticket to be aware of progress.
https://bitbucket.org/galaxy/galaxy-central/issue/660/galaxy-installation-with-mysql-database
Thanks for reporting this,
Greg Von Kuster
anks
>
> Michael.
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> and other Galaxy lists, please use the interface at:
>
> http://lists.bx.psu.edu/
Gre
Hello Matt,
Steve's script has not yet made it to the distribution, although it should be
available there within the next few weeks. If you need it sooner, you'll have
to pull it from galaxy central. Sorry for the inconvenience.
Greg Von Kuster
On Sep 27, 2011, at 4:18 PM, Mat
name like shed_tool_conf.xml, you should not
have a problem installing from a tool shed. I'll have a fix for the bug you've
discovered shortly, but making this change will fix the behavior until then.
Let me know if you bump into any additional problems.
Thanks for finding this!
Greg
to this
> and other Galaxy lists, please use the interface at:
>
> http://lists.bx.psu.edu/
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
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in y
][-1] }
>> #else if $reference_file.specify == "uploaded":
>>-reference_file $reference_file.value
>> #end if
>> [...]
>> #if str($homopolymer_dist):
>> -homopolymer_dist $homopolymer_dist
>> #end if
>>
>&g
Software Engineer
> Illumina, Inc.
> 9885 Towne Centre Drive
> San Diego, CA 92121
> Tel: 858-736-3584
> E-mail: jdu...@illumina.com
>
> From: Greg Von Kuster [mailto:g...@bx.psu.edu]
> Sent: Wednesday, October 05, 2011 6:25 PM
> To: Duddy, John
> Cc: galaxy-dev@
To clarify a bit more, there are currently only 2 languages supported in the Galaxy distribution; English and Japanese (note the 'en' and 'ja' subdirectories in the 'locale' directory). Setting your preferred language in your browser to Japanese will only render some Galaxy content in Japanese. T
their tools does not show any
that display Japanese.
On Oct 10, 2011, at 12:36 PM, Peter Cock wrote:
> On Mon, Oct 10, 2011 at 2:39 PM, Greg Von Kuster wrote:
>>
>> To clarify a bit more, there are currently only 2 languages
>> supported in the Galaxy distribution; English
$reference_file.value
>> #end if
>> [...]
>> #if str($homopolymer_dist):
>>-homopolymer_dist $homopolymer_dist
>> #end if
>>
>> #set $output_dir = $__new_file_path__
>> -output_dir $output_dir
>>
>>
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> and other Galaxy lists, please use the interface at:
>
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Greg Von Kuster
Galaxy Development
there is an "obviously right"
>> answer ;-}
>>
>> John Duddy
>> Sr. Staff Software Engineer
>> Illumina, Inc.
>> 9885 Towne Centre Drive
>> San Diego, CA 92121
>> Tel: 858-736-3584
>> E-mail: jdu...@illumina.com
>>
>>
>>
/Uploading%20Library%20Files
for all of the details.
Greg Von Kuster
On Oct 11, 2011, at 6:45 AM, alessandro albiero wrote:
> Dear all,
>
> I have a problem with galaxy and I have already tried to write on ther user
> list
> My problem concern the upload on galaxy of new files.
r tools does not show any
that display Japanese.
Greg Von Kuster
On Oct 10, 2011, at 10:01 PM, Hanfei Sun wrote:
> It works when I set Japanese as the preferred language.
>
> I saw these lines in ginga.po under the folder
> galaxy-dist/locale/jp/LC_MESSAGES
>
> #: tools/**.
> Email: icho...@illumina.com
> Website: www.illumina.com
>
>
> ___
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> in your mail client. To manage your subscriptions to this
> and other Galaxy lists, ple
has been desired for some
time, but is not on our near-future plans for implementation.
>
> Thank you,
>
> Florent
>
>
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
___
Please keep all replies on the list b
pment list.
Thanks everyone for all the input on this!
Greg Von Kuster
On Oct 7, 2011, at 2:05 PM, Jim Johnson wrote:
> Greg,
>
> It would be great if there were a way to expand upon the core datatypes using
> the ToolShed.
>
> Would it be possible to have a separate da
or my initial misunderstanding on this, as well as the inconvenience
this may cause.
Greg Von Kuster
On Oct 14, 2011, at 11:21 AM, alessandro albiero wrote:
> Dear Greg,
>
> many thank for your help. I follow all your instruction but my problem is
> always the same.
> Attach
ut with more metadata.
> I'm also adding a IntervalIndexTree class for indexing maps of splice
> junctions, introns, and SNPs.
> I'll send you this as soon as I've got it working.
>
> Thanks,
>
> JJ
>
>
> On 10/17/11 1:06 PM, Greg Von Kuster wrote:
:///galaxy_dbt?user=postgres&password=postgres
This is all you need to do. Then start up the Galaxy server with:
sh run.sh
and Galaxy will automatically create all of the necessary tables for you.
Greg Von Kuster
On Oct 20, 2011, at 7:44 PM, Luciano Cosme wrote:
> Hi,
>I am sorry
ty
>>> ___
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>>> in your mail client. To manage your subscriptions to this and other
>>> Galaxy lists, please use the interface at:
dev_r6498-py2.7.egg/sqlalchemy/engine/strategies.py",
> line 80, in connect
> raise exc.DBAPIError.instance(None, None, e)
> OperationalError: (OperationalError) could not connect to server: No such
> file or directory
> Is the server running locally and accepting
&
> [mailto:galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Chorny, Ilya
> Sent: Friday, October 21, 2011 8:40 AM
> To: Greg Von Kuster
> Cc: galaxy-dev@lists.bx.psu.edu
> Subject: Re: [galaxy-dev] FW: how do I pass the URL of the input and output
> files to my tool wrapper?
ml: introns.iit
> iit_store.xml: gmap_annotation
> iit_store.xml: gmap_snps
> iit_store.xml: iit
> iit_store.xml: splicesites.iit
> iit_store.xml: introns.iit
> iit_store.xml: snps.iit
> snpindex.xml: gmapsnpindex
> snpindex.xm
Hello Michael,
I don't think the ability to automatically install tools from a tool shed into
a local Galaxy instance has been made available in the Galaxy distribution yet.
Have you updated you Galaxy instance from Galaxy central? What version of
Galaxy are you running?
Greg Von Kuste
Hello David,
I'm not sure why you're seeing this - do you mind if I try to delete all of the
files in your repository whose name ends in '~'? That may help me track down
the problem.
Greg Von Kuster
On Oct 26, 2011, at 3:09 PM, David Murphy wrote:
> Hi
>
>
f you encounter further
problems. Sorry for the inconvenience with this.
Greg Von Kuster
On Oct 27, 2011, at 9:52 AM, David Murphy wrote:
> Just realized I didn't reply to all, so the list didn't see this.
>
> No problem at all, it would be much appreciated in fact.
>
> Is
The following provides specific details about the various options for uploading
files to data libraries.
http://wiki.g2.bx.psu.edu/Admin/Data%20Libraries/Uploading%20Library%20Files
Let us know if you encounter any issues.
Greg Von Kuster
On Oct 27, 2011, at 4:31 PM, Oren Livne wrote:
> D
y appreciate it!
Greg Von Kuster
On Oct 28, 2011, at 12:45 PM, Oren Livne wrote:
> Dear Greg,
>
> Thank you so much, this is exactly what I need. I will use the API access
> (scripts/api/*.py) to create the new data library. I have two more questions:
> - Is there an API function
s Galaxy change the original day files in any way when it loads
> them into a data library (e.g., prepend them with some metadata header), or
> does it leave them intact and stores the metadata separately?
> Thanks,
> Oren
>
> On 10/28/2011 1:44 PM, Greg Von Kuster wrote:
>> H
ntral (
https://bitbucket.org/galaxy/galaxy-central ) or wait until the next release to
the distribution, which should be within the next few weeks. We apologize for
this inconvenience.
Greg Von Kuster
On Nov 3, 2011, at 8:23 AM, jjv5 wrote:
> Hello,
>
> I am getting a st
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> in your mail client. To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>
seems like it would be a fairly common request - to your knowledge, has
> anyone outside Galaxy rolled their own solution along these lines?
>
> Thanks again,
> -J
>
>
> On Mon, Nov 7, 2011 at 11:41 AM, Greg Von Kuster wrote:
> Hello James,
>
> This is not curre
ither because you are the participating
> in a pull request, or you are following it.
>
>
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
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in your mail cli
the day reads of raw data
> and passing data to and from external tools, etc all assumes the data is
> sitting in a file, correct?
>
> Thanks again,
> -J
>
>
> On Mon, Nov 7, 2011 at 6:29 PM, Greg Von Kuster wrote:
> Hi James,
>
> Since genomic data fi
en't spent much time with the source so I
>> could be way off on these concerns - but this is my impression. I'd welcome
>> enlightenment if I'm wrong!
>>
>> Thanks,
>> -J
>>
>>
>> On Tue, Nov 8, 2011 at 3:13 PM, Greg Von Kuster
1, at 8:13 PM, Jim Johnson wrote:
> Here it is.
> JJ
>
> On 11/9/11 5:14 PM, Greg Von Kuster wrote:
>> Hi Jim,
>>
>> Would you mind attaching a tarball of the changed files you were attempting
>> to upload or push and send them to me? It would help me
found the right wiki.
>
> Thanks,
> Clare
>
> --
> E: s...@unimelb.edu.au
> P: 03 903 53357
> M: 0414 854 759
> ___
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> in your mail client. To manage
defuse. Thanks for discovering
this problem, and sorry for any inconvenience this may have caused.
Greg Von Kuster
On Nov 9, 2011, at 10:14 PM, Jim Johnson wrote:
> Greg,
>
> I had been trying to push from my local clone, as I had before. That failed
> with a 404 error.
&g
f currently, but
I'll try to take a look at this shortly ( unless other get a chance first ).
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
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in you
This issue has been corrected in change set 6261:26da65326612. The config
setting "allow_user_deletion" in universe_wsgi.ini must be set to true for the
operation buttons to be rendered.
On Nov 10, 2011, at 5:07 PM, Greg Von Kuster wrote:
>
> On Nov 10, 2011, at 4:48 PM, N
setup.
>>
>> As to email for admin - my advice would be don't worry about it - if
>> one user forgets their password you can reset it from the admin
>> interface - that's the main use and if this is really a test instance,
>> it's not a show stopper.
>
t uploading your new version of your CADDSuite -
I'm assuming we'll need to implement an ftp upload process because the browser
may be timing out with the larger upload. I'll let you know what I find (I'll
probably get back to you on Monday).
Thanks again,
Greg Von Kuster
On No
wnloads from remote servers
> (instead of upload from the local computer); just as the 'Upload File' tool
> allows to do in Galaxy. :-)
>
>
> Best regards,
> Marcel
>
>
> On 11/12/11 10:18 PM, Greg Von Kuster wrote:
>> Hi Marcel,
>>
>> T
ot;
> in your mail client. To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>
> http://lists.bx.psu.edu/
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
___
Please keep
of my repository, but perhaps you
> can find out ... ;-)
>
>
> Cheers,
> Marcel
>
>
> On 11/16/11 5:32 PM, Greg Von Kuster wrote:
>> Hi Marcel,
>>
>>
>> On Nov 15, 2011, at 5:06 PM, Marcel Schumann wrote:
>>
>>> Hi Greg,
>>&
. If you
want it now you can pull from the central repo to get it.
Thanks for letting me know about this issue.
Greg Von Kuster
On Nov 22, 2011, at 10:22 AM, Sajoscha Sauer wrote:
> Hi all,
>
> We are just about to enable the Toolshed on our development installation of
> Gal
---
>
>
>
>
>
>
> ___
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> in your mail client. To manage
Hello Sajoscha,
If you're pulling from central to get this fix, this is the change set that
should be used - it includes some additional fixes:
255f4bde822b
Again, sorry for the inconvenience.
On Nov 22, 2011, at 5:18 PM, Greg Von Kuster wrote:
> Hello Sajoscha,
>
> I've
ing "reply all"
>> in your mail client. To manage your subscriptions to this
>> and other Galaxy lists, please use the interface at:
>>
>> http://lists.bx.psu.edu/
>
> ___
> Please keep all repli
looking at your
configuration file.
Thanks,
Greg Von Kuster
On Nov 24, 2011, at 10:34 AM, Louise-Amélie Schmitt wrote:
> Hello Greg
>
> We tried to run the toolshed like you explained (thanks a lot for the quick
> answer btw), it starts fine, but when we try to access it on the
;
> Please find attached the file you asked for. Just in case, I also sent you
> the run_community.sh script we use to start the toolshed.
>
> Thanks a lot,
> Louise-Amélie
>
>
> Le 25/11/2011 00:36, Greg Von Kuster a écrit :
>> Hello Louise,
>>
>> Ca
7
> Tel. (lab): +496221 56-4835
> email: jan.h...@med.uni-heidelberg.de
>
>
>
> ___
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> and other Galaxy l
ed a symlink:
> ln -s /templates/webapps/community
> /lib/galaxy/webapps/community/templates
>
> Thanks,
> L-A
>
>
>
> Le 25/11/2011 14:07, Greg Von Kuster a écrit :
>>
>> Hello Louise-Amelie,
>>
>> I believe the problem is caused by the inclus
>>>> RewriteRule ^/toolshed/robots.txt
>>>>> /home/galaxy/galaxy-dev/static/robots.txt [L]
>>>>> RewriteRule ^/toolshed(.*) http://localhost:9009$1 [P]
>>>>>
>>>>> I kinda guessed them from what we had for galaxy, but most li
385321444;
> ___
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>
> http://lists.bx
ng what is necessary to not throw server errors when
running a tool shed that requires users to login. Thanks for your help on
this, and sorry for the inconvenience.
Greg Von Kuster
On Nov 30, 2011, at 6:40 AM, Greg Von Kuster wrote:
> This is undoubtedly a result of something I broke in chan
py of your
community_wsgi.ini file.
thanks,
Greg Von Kuster
http://wiki.g2.bx.psu.edu/Tool%20Shed#Hosting_your_own_local_tool_shed
On Nov 30, 2011, at 7:22 AM, Sajoscha Sauer wrote:
> Hi Greg,
>
> Sorry for the late reply!
>
> Yes, we see the error when trying to install a
for Applied Bioinformatics
> Room C313, Sand 14, D-72076 Tuebingen
>
> phone: +49 (0)7071-29 70437
> fax: +49 (0)7071-29 5152
> email: schum...@informatik.uni-tuebingen.de
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
___
ult from running a functional test for a tool, then I
believe there is no difference if the test passed or failed.
>
> Thanks,
> Eric
>
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
___
Please keep all replies on
guess I don't have to change something in my ini file,
> right?
>
> We also updated to the revision 834de698004e
>
> Thanks,
> Sajoscha
>
> On Nov 30, 2011, at 3:36 PM, Greg Von Kuster wrote:
>
>> I've recently added the following section to the tool s
cult this may be.
> and (b) whether that issue is on the radar of your team and specifically on
> the radar of the primary developer(s) / maintainer(s) of the testing
> framework?
This issue is not currently anywhere on the development team's radar. Sorry if
this is an inconvenienc
ies on the list by using "reply all"
> in your mail client. To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>
> http://lists.bx.psu.edu/
>
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
__
ly the reason I was curious about whether
> such features were in the works or at least on the horizon at the Galaxy
> Development Team proper.
>
> Anyway, thanks for communicating. Have a great day :)
>
> Best,
> Eric
>
>
/filter = database/community_files/000/repo_1
repos/test/workflow_with_tools = database/community_files/000/repo_2
repos/test/heteroplasmy_workflow = database/community_files/000/repo_3
>
> Thanks for your patience!
> L-A
>
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
Hello Zach,
Are you trying to get a local install of Galaxy to communicate with a local
tool shed? If so, can you send me your universe_wsgi.ini file and your
community_wsgi.ini file?
Greg Von Kuster
On Dec 7, 2011, at 10:20 AM, Zachary Charlop-Powers wrote:
> Hello Galaxy,
>
&g
. If that is the case I should be able to install Galaxy Tools via
> the web without starting up a second server. I think thats probably the best
> way to proceed - not too hard since I don;t really have any data or history
> on the server yet.
>
> Just clean out the galaxy user h
thing
gets munged, which is undoubtedly what is now happening when you upload the
file because Galaxy sniffs it as some other data type.
I'm not sure, but perhaps others in the community have done work in this area.
Greg Von Kuster
On Dec 8, 2011, at 4:11 AM, Siemen Sikkema wrote
;
>> Siemen
>
> The easiest way is to contribute your new file type to the main
> Galaxy repository. They've said if it is reasonably general they're
> OK with including more file types.
>
> Peter
Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
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>
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Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu
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Yes, I was just providing the status of support for those niche formats.
On Dec 15, 2011, at 8:41 AM, Peter Cock wrote:
> On Thu, Dec 15, 2011 at 12:12 PM, Greg Von Kuster wrote:
>> I'm fairly far down the implementation path for supporting inclusion of
>> new dat
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