How to get the data-view on local instance just like the Galaxy Main ?
Hi, A few days ago, I have installed the stable release of of Galaxy local instance on my Workstation & I am running it behind Apache web server proxy . In regard to the data snapshots, I've observed that, it is much more organized on the Galaxy main rather than on my local instance. For example, Take a look at these pictures: On my local instance: [image: Inline image 1] On the Galaxy main: (also, this [image: Inline image 4] is missing on my local instance) [image: Inline image 2] Also, when I click the view [image: Inline image 3] on my local instance,the headers of the data is not corresponding to its respective columns. So, how can I fine tune these ? Thanks in advance! Nikhil. -- ------------------------------------------------------------ Nikhil Vinod Mallela, M.Sc. University of Muenster, Institute of Bioinformatics, Neil-Stensen Str. 12-14, 48149, Muenster,Germany. Tel.: +49 0251 83 50006 Fax: +49 0251 83 53005Email: mallela@uni-muenster.dehttp://complex-systems.uni-muenster.de/-------------------------------------...
Hi Nikhil what is the data format for this data set in your local installation and on main? Regards, Hans-Rudolf On 08/02/2013 09:56 AM, Nikhil Mallela wrote:
Hi,
A few days ago, I have installed the stable release of of Galaxy local instanceon my Workstation & I am running it behind Apache web server proxy . In regard to the data snapshots, I've observed that, it is much more organized on the Galaxy main rather than on my local instance. For example, Take a look at these pictures:
On my local instance: Inline image 1
On the Galaxy main: (also, this Inline image 4 is missing on my local instance) Inline image 2
Also, when I click the view Inline image 3 on my local instance,the headers of the data is not corresponding to its respective columns. So, how can I fine tune these ?
Thanks in advance! Nikhil.
--
------------------------------------------------------------ Nikhil Vinod Mallela, M.Sc. University of Muenster, Institute of Bioinformatics, Neil-Stensen Str. 12-14, 48149, Muenster,Germany.
Tel.:+49 0251 83 50006 Fax: +49 0251 83 53005 Email: mallela@uni-muenster.de <mailto:mallela@uni-muenster.de> http://complex-systems.uni-muenster.de/ ------------------------------------------------------------
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Hi Hans-Rudolf, The data format is ".qual" file from SOLiD sequencers. Its the same sample file that I've uploaded to the main and the local installation. But as you have seen in my previous post, the headers are inline with the data on main; but not on my local installation. what could be the reason ? Thanks, Nikhil. On Fri, Aug 2, 2013 at 11:21 AM, Hans-Rudolf Hotz <hrh@fmi.ch> wrote:
Hi Nikhil
what is the data format for this data set in your local installation and on main?
Regards, Hans-Rudolf
On 08/02/2013 09:56 AM, Nikhil Mallela wrote:
Hi,
A few days ago, I have installed the stable release of of Galaxy local instanceon my Workstation & I am running it behind Apache web server proxy .
In regard to the data snapshots, I've observed that, it is much more organized on the Galaxy main rather than on my local instance. For example, Take a look at these pictures:
On my local instance: Inline image 1
On the Galaxy main: (also, this Inline image 4 is missing on my local instance) Inline image 2
Also, when I click the view Inline image 3 on my local instance,the
headers of the data is not corresponding to its respective columns. So, how can I fine tune these ?
Thanks in advance! Nikhil.
--
------------------------------**------------------------------ Nikhil Vinod Mallela, M.Sc. University of Muenster, Institute of Bioinformatics, Neil-Stensen Str. 12-14, 48149, Muenster,Germany.
Tel.:+49 0251 83 50006 Fax: +49 0251 83 53005 Email: mallela@uni-muenster.de <mailto:mallela@uni-muenster.**de<mallela@uni-muenster.de>
http://complex-systems.uni-**muenster.de/<http://complex-systems.uni-muenster.de/> ------------------------------**------------------------------
______________________________**_____________________________ Please keep all replies 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/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/**search/mailinglists/<http://galaxyproject.org/search/mailinglists/>
-- ------------------------------------------------------------ Nikhil Vinod Mallela, M.Sc. University of Muenster, Institute of Bioinformatics, Neil-Stensen Str. 12-14, 48149, Muenster,Germany. Tel.: +49 0251 83 50006 Fax: +49 0251 83 53005Email: mallela@uni-muenster.dehttp://complex-systems.uni-muenster.de/-------------------------------------...
Hi I guess, you misunderstood my question. I was revering to the format within galaxy, ie what is written in the preview window (unfortunately, you did cut this off from your pictures in your original post) between "format:" and ", database". Hans-Rudolf On 08/02/2013 11:50 AM, Nikhil Mallela wrote:
Hi Hans-Rudolf,
The data format is ".qual" file from SOLiD sequencers. Its the same sample file that I've uploaded to the main and the localFormat installation. But as you have seen in my previous post, the headers are inline with the data on main; but not on my local installation. what could be the reason ?
Thanks, Nikhil.
On Fri, Aug 2, 2013 at 11:21 AM, Hans-Rudolf Hotz <hrh@fmi.ch <mailto:hrh@fmi.ch>> wrote:
Hi Nikhil
what is the data format for this data set in your local installation and on main?
Regards, Hans-Rudolf
On 08/02/2013 09:56 AM, Nikhil Mallela wrote:
Hi,
A few days ago, I have installed the stable release of of Galaxy local instanceon my Workstation & I am running it behind Apache web server proxy .
In regard to the data snapshots, I've observed that, it is much more organized on the Galaxy main rather than on my local instance. For example, Take a look at these pictures:
On my local instance: Inline image 1
On the Galaxy main: (also, this Inline image 4 is missing on my local instance) Inline image 2
Also, when I click the view Inline image 3 on my local instance,the
headers of the data is not corresponding to its respective columns. So, how can I fine tune these ?
Thanks in advance! Nikhil.
--
------------------------------__------------------------------ Nikhil Vinod Mallela, M.Sc. University of Muenster, Institute of Bioinformatics, Neil-Stensen Str. 12-14, 48149, Muenster,Germany.
Tel.:+49 0251 83 50006 Fax: +49 0251 83 53005 Email: mallela@uni-muenster.de <mailto:mallela@uni-muenster.de> <mailto:mallela@uni-muenster.__de <mailto:mallela@uni-muenster.de>> http://complex-systems.uni-__muenster.de/ <http://complex-systems.uni-muenster.de/> ------------------------------__------------------------------
_____________________________________________________________ Please keep all replies 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/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/__search/mailinglists/ <http://galaxyproject.org/search/mailinglists/>
--
------------------------------------------------------------ Nikhil Vinod Mallela, M.Sc. University of Muenster, Institute of Bioinformatics, Neil-Stensen Str. 12-14, 48149, Muenster,Germany.
Tel.:+49 0251 83 50006 Fax: +49 0251 83 53005 Email: mallela@uni-muenster.de <mailto:mallela@uni-muenster.de> http://complex-systems.uni-muenster.de/ ------------------------------------------------------------
Hi Hans-Rudolf, I was wrong previously. It is output produced (.txt) while computing the quality statistics on the .qual file The output format seems to have been detected by Galaxy as a ".txt" file. Here is a snapshot. [image: Inline image 1] Nikhil. On Fri, Aug 2, 2013 at 11:58 AM, Hans-Rudolf Hotz <hrh@fmi.ch> wrote:
Hi
I guess, you misunderstood my question. I was revering to the format within galaxy, ie what is written in the preview window (unfortunately, you did cut this off from your pictures in your original post) between "format:" and ", database".
Hans-Rudolf
and now, what happens, if you change it to 'tabular'? (click on the pencil icon - 'Edit Attributes', and then on Datatype On 08/02/2013 12:18 PM, Nikhil Mallela wrote:
Hi Hans-Rudolf,
I was wrong previously. It is output produced (.txt) while computing the quality statistics on the .qual file The output format seems to have been detected by Galaxy as a ".txt" file.
Here is a snapshot.
Inline image 1
Nikhil.
On Fri, Aug 2, 2013 at 11:58 AM, Hans-Rudolf Hotz <hrh@fmi.ch <mailto:hrh@fmi.ch>> wrote:
Hi
I guess, you misunderstood my question. I was revering to the format within galaxy, ie what is written in the preview window (unfortunately, you did cut this off from your pictures in your original post) between "format:" and ", database".
Hans-Rudolf
WoW ! Thats perfect ! Thank you very much !! :) On Fri, Aug 2, 2013 at 12:44 PM, Hans-Rudolf Hotz <hrh@fmi.ch> wrote:
and now, what happens, if you change it to 'tabular'?
(click on the pencil icon - 'Edit Attributes', and then on Datatype
Here are a couple of questions on rsync: 1. the amount of files for hg19 and mm9 is extremely different (over 600 vs. 88 Gb) - why is that so? 2. if I list the directories for hg19 and mm9, there seems to be a group of files for bowtie2 in hg19, but not in mm9 - where are the ones for mm9? 3. genome sequences such as mm9.fa are not in /indexes, there are only pointers (mm9/bowtie_index/mm9.fa -> ../seq/mm9.fa ) can the sequence files be 'rsync'ed from somewhere? Gerald
participants (3)
-
Gerald Bothe -
Hans-Rudolf Hotz -
Nikhil Mallela