Hello James,
On Mar 8, 2011, at 1:23 AM, James Taylor wrote:
> Davide, see bx.bbi.bigwig_file.BigWigFile
>
I'm trying to... :-)
> Implemented in Cython, there is also some BigBed support with a common class
> (bbi_file) for the indexing and aggregation pieces.
>
> This is currently read onl
Davide, see bx.bbi.bigwig_file.BigWigFile
Implemented in Cython, there is also some BigBed support with a common
class (bbi_file) for the indexing and aggregation pieces.
This is currently read only. Also, not tested exhaustively on
different types of bigwig, but I believe we have most case
Hello,
We all think that this would be a great tool to add, but actually
implementing it is a bit tricker than it may seem at first. To help
where we could, the Fastq Groomer was changed to offer a bit more
information about a run. But, knowing the source is still the best solution.
Hopefull
Hi Christin,
This error message means that the build assigned to your data is not
loaded as a native database genome. This wiki page explains how to load
genomes to local instances:
https://bitbucket.org/galaxy/galaxy-central/wiki/DataIntegration
Best,
Jen
Galaxy team
ps. Apologies for the
Hi all,
Probably this is not the best place to ask about bx-python, but since most of
bx developers are galaxy developers, it may be worth trying...
I just want to know the status of bigwig support in bx. I need to handle
bigwig as input data and I previously wrapped kent binaries with python
subpr
Hello all. First of all thanks to Galaxy developers and supporters for this
great tool -- I'm experimenting with adding my custom tools to galaxy and I'm
very impressed with how simple galaxy makes this process.
Some of the tools that I'm adding to my local instance take reference files as
a
Peter Cock wrote:
> On Mon, Mar 7, 2011 at 5:56 PM, Nate Coraor wrote:
> > Ryan Golhar wrote:
> >> I have a local instance running. When I'm logged in as user1, log
> >> out, then try to log in as user2, I keep getting the "You have been
> >> logged out" message.
> >>
> >> Its as if the browser's
On Mon, Mar 7, 2011 at 5:56 PM, Nate Coraor wrote:
> Ryan Golhar wrote:
>> I have a local instance running. When I'm logged in as user1, log
>> out, then try to log in as user2, I keep getting the "You have been
>> logged out" message.
>>
>> Its as if the browser's cache is retaining some informa
Ryan Golhar wrote:
> I have a local instance running. When I'm logged in as user1, log
> out, then try to log in as user2, I keep getting the "You have been
> logged out" message.
>
> Its as if the browser's cache is retaining some information. To get
> around this, after I log out as user1, I h
Dear Nate and developers,
Could you please let me know if you have any solution for my questions and
several attachments sent to you last week? Someone web pages don't work
well.
Looking forward to hearing from you.
Best Wishes,
Yan
On Mon, Feb 28, 2011 at 4:45 PM, Yan Luo wrote:
> Dear Nat
Yanji Xu wrote:
> Dear Sir/Madam,
>
> I installed galaxy in my local server, then I tried to upload a 4.7 Gb fastq
> file into galaxy, but failed. Below is the error message.
>
> OverflowError: signed integer is greater than maximum
>
> How could I upload large data files into galaxy and proce
Yan Luo wrote:
> Dear Nate,
>
> We have a new issue to use Galaxy. When we login use a general user account,
> we found:
>
> (1) When we upload six fastq files via URL, three of them can be uploaded
> successfully while the other three can't be uploaded.
Hi Yan,
Could you expand the history ite
Musa A. Hassan wrote:
> I am trying to use galaxy for the first time and am running into some early
> problems. While trying to upload my file which is basically an fq containing
> illumina short reads, the file won't upload. When I try the fastq extension
> of the same file, it does but then th
I currently have a Python script that outputs an HTML with an embedded Applet.
The Java is installed under /tools/blah and I have the which should appropriately step out of the dataset
space where the HTML wants to execute, but it returns 404's for the code. Is
there something I am doing wron
Thanks for letting us know - I've removed the reference to setup.sh from
README.txt.
On Mar 6, 2011, at 11:08 AM, Zhi-Wei Lu wrote:
> On 03/06/2011 07:14 AM, Peter Cock wrote:
>> On Sun, Mar 6, 2011 at 6:36 AM, Zhi-Wei Lu wrote:
>>> Hi Galaxy developers,
>>>
>>> I have download the galaxy code
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