Hi Martin,
Thanks for the prompt reply! My responses are inline below.
On Tue, Feb 24, 2015 at 8:26 AM, Martin Čech wrote:
> Are you using Admin UI for installation or API scripts?
>
The admin UI exclusively.
> Does the 'installed tool shed repos' page show multiple installations of
> the sa
Hi Michael,
We have update the repository. Please re-install the Charts plugin. It
should work now.
Thanks,
Sam
On Tue, Feb 24, 2015 at 9:39 AM, Michael Thon wrote:
> Hi -
> I tried to install the package charts but it failed on the dependency
> charts_r_packages with this error:
>
> File
> "/
On Tue, Feb 24, 2015 at 4:43 PM, Roberto Alonso CIPF wrote:
> Hello again,
>
> first of all thanks for your help, it is being very useful.
>
> What I have done up to now is to copy this method to the class Sequence
>
> def get_split_commands_sequential(is_compressed, input_name, output_name,
> sta
Hello again,
first of all thanks for your help, it is being very useful.
What I have done up to now is to copy this method to the class Sequence
def get_split_commands_sequential(is_compressed, input_name, output_name,
start_sequence, sequence_count):
"""
Does a brain-dead sequen
Hello Brian,
I have just tried to install and uninstall NVC on my development machine
multiple times and was not able to replicate the problem. However I have
seen similar things before. Let me ask you few questions:
Are you using Admin UI for installation or API scripts?
Does the 'installed tool
On Tue, Feb 24, 2015 at 2:57 PM, Dannon Baker wrote:
> Hi Peter,
>
> Yes, this is a known recent issue that I'm actually at work fixing right
> now.
>
> -Dannon
Great - I'll ignore this for now (it appears harmless for what
I want to do today).
Thanks,
Peter
Hi Peter,
Yes, this is a known recent issue that I'm actually at work fixing right
now.
-Dannon
On Tue Feb 24 2015 at 9:53:24 AM Peter Cock
wrote:
> Hi all,
>
> I'm trying the (BETA 2) GitHub repository with a view to switching
> from hg for my Galaxy development. There are a couple of big
> s
Hi all,
I'm trying the (BETA 2) GitHub repository with a view to switching
from hg for my Galaxy development. There are a couple of big
scary tracebacks in the stdout which look like SQLalchemy
incompatibilities - are these a recent issue?
$ git clone
$ cd galaxy
$ cp config/galaxy.ini.sample con
Hi -
I tried to install the package charts but it failed on the dependency
charts_r_packages with this error:
File
"/home/galaxy/galaxy-dist/lib/tool_shed/galaxy_install/install_manager.py",
line 139, in install_and_build_package_via_fabric tool_dependency =
self.install_and_build_package( to
Am 24.02.2015 um 13:01 schrieb Nicola Soranzo:
> Il 24.02.2015 10:19 Björn Grüning ha scritto:
>
>> Am 24.02.2015 um 10:03 schrieb Peter Cock:
>>
>>> On Tue, Feb 24, 2015 at 6:31 AM, Michael Thon wrote:
>>>
The main problem for me was that I was not aware that the tophat tool
had a dep
Il 24.02.2015 10:19 Björn Grüning ha scritto:
Am 24.02.2015 um 10:03 schrieb Peter Cock:
On Tue, Feb 24, 2015 at 6:31 AM, Michael Thon wrote:
The main problem for me was that I was not aware that the tophat
tool
had a dependency on a command line tool outside of galaxy
installation. I see i
On Tue, Feb 24, 2015 at 9:19 AM, Björn Grüning
wrote:
> Am 24.02.2015 um 10:03 schrieb Peter Cock:
>> ... So far so good, but at that point Galaxy
>> tries to index the BAM file itself. This happens for any BAM file,
>> regardless of the tool which created it - and simply expects samtools
>> on th
Am 24.02.2015 um 10:03 schrieb Peter Cock:
> On Tue, Feb 24, 2015 at 6:31 AM, Michael Thon wrote:
>> The main problem for me was that I was not aware that the tophat
>> tool had a dependency on a command line tool outside of galaxy
>> installation. I see in the admin interface that tophat has a
On Tue, Feb 24, 2015 at 6:31 AM, Michael Thon wrote:
> The main problem for me was that I was not aware that the tophat
> tool had a dependency on a command line tool outside of galaxy
> installation. I see in the admin interface that tophat has a dependency
> on samtools of type package and I as
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