Add your own track on chado-based GBrowse

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Re: Add your own track on chado-based GBrowse

by heekim :: Rate this Message:

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Scott,

I did like :

heekim@bioinfo-apps-5:~/Bio-DB-Das-Chado-0.22$ sudo ./Build install --unist 1
Skipping /usr/local/share/perl/5.8.8/Bio/DB/Das/Chado.pm (unchanged)
Skipping /usr/local/share/perl/5.8.8/Bio/DB/Das/Chado/Segment.pm (unchanged)
Skipping /usr/local/share/perl/5.8.8/Bio/DB/Das/Chado/Segment/Feature.pm (unchanged)
Skipping /usr/local/man/man3/Bio::DB::Das::Chado.3pm (unchanged)
Skipping /usr/local/man/man3/Bio::DB::Das::Chado::Segment::Feature.3pm (unchanged)
Skipping /usr/local/man/man3/Bio::DB::Das::Chado::Segment.3pm (unchanged)
Writing /usr/local/lib/perl/5.8.8/auto/Bio/DB/Das/Chado/.packlist

There is no different in GBrowse.
Thank you.

Hee Shin


Scott Cain-4 wrote:
Hi Hee Shin,

One important thing I thought of over the weekend: when you do "sudo
./Build install" you need to add "--uninst 1", because GBrowse 1.X
installed adaptors in the architecture dependent libraries, but this
installer goes in the independent libraries (which is where it should
have been to begin with).  With out the uninst, GBrowse will continue
to use the old adaptor because it comes first in the list of paths to
use for perl.  You can just rerun the install command:

  sudo ./Build install --uninst 1

Scott


On Fri, May 29, 2009 at 4:59 PM, heekim <heekim@ksu.edu> wrote:
>
> Scott,
>
> I downloaded Bio-DB-Das-Chado-0.22 and then do the followings, perl ./Build
> -> sudo ./Build -> sudo ./Build test -> sudo ./Build install.
> There was no error.
>
> But I couldn't get the user defined track in the GB.
> I also checked the error log file for Apache, I had the same error message
> that i reported in the earlier thread.
>
> Thank you
>
> Hee Shin
>
>
> Scott Cain-4 wrote:
>>
>> Hi Hee Shin,
>>
>> I don't currently have an instance of GBrowse2 installed but I do have
>> GBrowse pre-1.70 and it does work with the most current release of
>> Bio::DB::Das::Chado (version 0.22).  Have you tried that version with
>> GBrowse2?
>>
>> Scott
>>
>> On Fri, May 29, 2009 at 2:10 PM, heekim <heekim@ksu.edu> wrote:
>>>
>>> Scott,
>>>
>>> I have two versions of GBrowse. One is v1.68, which is running
>>> BeetleBase.
>>> the other is v2.0, which is the newest version and is running my test
>>> server.
>>>
>>> I tried to load user-defined data in both machines.
>>> Both of them did not work.
>>>
>>> It seems to me that Chado-Based GBrowse doesn't support the function.
>>> Thank you.
>>>
>>> Hee Shin
>>>
>>>
>>> Scott Cain-4 wrote:
>>>>
>>>> Hi Hee Shin,
>>>>
>>>> Since there have been a lot of changes to the Chado adaptor since
>>>> GBrowse 1.68 came out, could you try updating your Chado adaptor from
>>>> cpan?  If you don't get version 0.22 you'll need to add the fix to
>>>> Segment.pm that mentioned a few emails back.
>>>>
>>>> Scott
>>>>
>>>>
>>>> On Thu, May 28, 2009 at 5:39 PM, heekim <heekim@ksu.edu> wrote:
>>>>>
>>>>> in this time, I got an error like:
>>>>> [Thu May 28 16:15:34 2009] [error] [client 85.177.47.107] Use of
>>>>> uninitialized value in pattern match (m//) at
>>>>> /usr/local/lib/perl/5.8.8/Bio/DB/Das/Chado.pm line 706, <FILE> line
>>>>> 109.,
>>>>> referer:
>>>>> http://beetlebase.org/cgi-bin/gbrowse_details/BeetleBase3.gff3?name=TC000925;class=gene%3ACurated;ref=ChLG2;start=10353648;end=10374620;feature_id=323307
>>>>>
>>>>> I don't have others than this.
>>>>> I am not sure if you accessed to it.
>>>>>
>>>>> Hee Shin
>>>>>
>>>>>
>>>>> Scott Cain-4 wrote:
>>>>>>
>>>>>> Hi Heekim,
>>>>>>
>>>>>> I'm getting the feeling the category thing is a red herring.  There's
>>>>>> nothing else in the error log?
>>>>>>
>>>>>> Scott
>>>>>>
>>>>>>
>>>>>> On Thu, May 28, 2009 at 5:05 PM, heekim <heekim@ksu.edu> wrote:
>>>>>>>
>>>>>>> I got still the same error.
>>>>>>>
>>>>>>> Hee
>>>>>>>
>>>>>>> Scott Cain-4 wrote:
>>>>>>>>
>>>>>>>> What happens if you add a category to the track definition in the
>>>>>>>> upload?  Like this:
>>>>>>>>
>>>>>>>> [expression]
>>>>>>>> glyph = xyplot
>>>>>>>> graph_type=boxes
>>>>>>>> fgcolor = black
>>>>>>>> bgcolor = red
>>>>>>>> height=100
>>>>>>>> min_score=0
>>>>>>>> max_score=110
>>>>>>>> label=1
>>>>>>>> key=Expression Level
>>>>>>>> category=upload
>>>>>>>>
>>>>>>>>
>>>>>>>> Scott
>>>>>>>>
>>>>>>>>
>>>>>>>> On Thu, May 28, 2009 at 4:56 PM, heekim <heekim@ksu.edu> wrote:
>>>>>>>>>
>>>>>>>>> it is in sub tableize,
>>>>>>>>>
>>>>>>>>>  # checks if this is about to rendered and if it is set the correct
>>>>>>>>> row/columns lengths
>>>>>>>>>  if ( defined $categorytable{$category} ) {
>>>>>>>>> <---------------------- here is line 2925
>>>>>>>>>    @column_labels=@{$categorytable{$category}{row_labels}};
>>>>>>>>>    @row_labels=@{$categorytable{$category}{col_labels}};
>>>>>>>>>    $rows    =$#row_labels+1;
>>>>>>>>>    $columns =$#column_labels+1;
>>>>>>>>>  }
>>>>>>>>>
>>>>>>>>> Thank you
>>>>>>>>> Hee
>>>>>>>>>
>>>>>>>>> Scott Cain-4 wrote:
>>>>>>>>>>
>>>>>>>>>> Hi Heekim,
>>>>>>>>>>
>>>>>>>>>> Can you tell us what line 2925 of your instance of gbrowse is?  I
>>>>>>>>>> don't have that version installed, so it is a little difficult to
>>>>>>>>>> debug.
>>>>>>>>>>
>>>>>>>>>> Scott
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> On Thu, May 28, 2009 at 3:28 PM, heekim <heekim@ksu.edu> wrote:
>>>>>>>>>>>
>>>>>>>>>>> Hi Lincoln
>>>>>>>>>>>
>>>>>>>>>>> There is an error.
>>>>>>>>>>> [Thu May 28 14:21:30 2009] [error] [client 129.130.115.205] Use
>>>>>>>>>>> of
>>>>>>>>>>> uninitialized value in hash element at /usr/lib/cgi-bin/gbrowse
>>>>>>>>>>> line
>>>>>>>>>>> 2925.,
>>>>>>>>>>> referer:
>>>>>>>>>>> http://www.beetlebase.org/cgi-bin/gbrowse/BeetleBase3.gff3/
>>>>>>>>>>>
>>>>>>>>>>> Hee
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> Lincoln Stein-3 wrote:
>>>>>>>>>>>>
>>>>>>>>>>>> Is there an error in the apache error log?
>>>>>>>>>>>>
>>>>>>>>>>>> Lincoln
>>>>>>>>>>>>
>>>>>>>>>>>> On Thu, May 28, 2009 at 2:52 PM, heekim <heekim@ksu.edu> wrote:
>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> Hi,
>>>>>>>>>>>>>
>>>>>>>>>>>>> Does the chado-based GBrowse support uploaded tracts?
>>>>>>>>>>>>> One of our ousers claimed that he cannot load his data tract.
>>>>>>>>>>>>> Following instruction, I tried to do it again.
>>>>>>>>>>>>> It seems that It doesn't work.
>>>>>>>>>>>>>
>>>>>>>>>>>>> Thank you
>>>>>>>>>>>>>
>>>>>>>>>>>>> Hee
>>>>>>>>>>>>> --
>>>>>>>>>>>>> View this message in context:
>>>>>>>>>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23767794.html
>>>>>>>>>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd,
>>>>>>>>>>>>> NYC.
>>>>>>>>>>>>> CaT
>>>>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>>>>> professionals.
>>>>>>>>>>>>> Meet
>>>>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>>>>> Processing,
>>>>>>>>>>>>> &
>>>>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights
>>>>>>>>>>>>> like
>>>>>>>>>>>>> Barbarian
>>>>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>>>>> Gmod-gbrowse@lists.sourceforge.net
>>>>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> --
>>>>>>>>>>>> Lincoln D. Stein
>>>>>>>>>>>> Director, Informatics and Biocomputing Platform
>>>>>>>>>>>> Ontario Institute for Cancer Research
>>>>>>>>>>>> 101 College St., Suite 800
>>>>>>>>>>>> Toronto, ON, Canada M5G0A3
>>>>>>>>>>>> 416 673-8514
>>>>>>>>>>>> Assistant: Renata Musa <Renata.Musa@oicr.on.ca>
>>>>>>>>>>>>
>>>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC.
>>>>>>>>>>>> CaT
>>>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>>>> professionals.
>>>>>>>>>>>> Meet
>>>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>>>> Processing,
>>>>>>>>>>>> &
>>>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights
>>>>>>>>>>>> like
>>>>>>>>>>>> Barbarian
>>>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>>>> Gmod-gbrowse@lists.sourceforge.net
>>>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> --
>>>>>>>>>>> View this message in context:
>>>>>>>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23768430.html
>>>>>>>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC.
>>>>>>>>>>> CaT
>>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>>> professionals.
>>>>>>>>>>> Meet
>>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>>> Processing,
>>>>>>>>>>> &
>>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>>>>>> Barbarian
>>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>>> _______________________________________________
>>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>>> Gmod-gbrowse@lists.sourceforge.net
>>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> --
>>>>>>>>>> ------------------------------------------------------------------------
>>>>>>>>>> Scott Cain, Ph. D.                                   scott at
>>>>>>>>>> scottcain
>>>>>>>>>> dot net
>>>>>>>>>> GMOD Coordinator (http://gmod.org/)
>>>>>>>>>> 216-392-3087
>>>>>>>>>> Ontario Institute for Cancer Research
>>>>>>>>>>
>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC.
>>>>>>>>>> CaT
>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>> professionals.
>>>>>>>>>> Meet
>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>> Processing,
>>>>>>>>>> &
>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>>>>> Barbarian
>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>> _______________________________________________
>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>> Gmod-gbrowse@lists.sourceforge.net
>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>> --
>>>>>>>>> View this message in context:
>>>>>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23769972.html
>>>>>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC.
>>>>>>>>> CaT
>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>> professionals.
>>>>>>>>> Meet
>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>> Processing,
>>>>>>>>> &
>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>>>> Barbarian
>>>>>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>>>>>> _______________________________________________
>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>> Gmod-gbrowse@lists.sourceforge.net
>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> --
>>>>>>>> ------------------------------------------------------------------------
>>>>>>>> Scott Cain, Ph. D.                                   scott at
>>>>>>>> scottcain
>>>>>>>> dot net
>>>>>>>> GMOD Coordinator (http://gmod.org/)                     216-392-3087
>>>>>>>> Ontario Institute for Cancer Research
>>>>>>>>
>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>> professionals.
>>>>>>>> Meet
>>>>>>>> the minds behind Google Creative Lab, Visual Complexity, Processing,
>>>>>>>> &
>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>>> Barbarian
>>>>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>>>>> _______________________________________________
>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>> Gmod-gbrowse@lists.sourceforge.net
>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>
>>>>>>>>
>>>>>>>
>>>>>>> --
>>>>>>> View this message in context:
>>>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23770120.html
>>>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>>>
>>>>>>>
>>>>>>> ------------------------------------------------------------------------------
>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>> professionals.
>>>>>>> Meet
>>>>>>> the minds behind Google Creative Lab, Visual Complexity, Processing,
>>>>>>> &
>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>> Barbarian
>>>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>>>> _______________________________________________
>>>>>>> Gmod-gbrowse mailing list
>>>>>>> Gmod-gbrowse@lists.sourceforge.net
>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> ------------------------------------------------------------------------
>>>>>> Scott Cain, Ph. D.                                   scott at
>>>>>> scottcain
>>>>>> dot net
>>>>>> GMOD Coordinator (http://gmod.org/)                     216-392-3087
>>>>>> Ontario Institute for Cancer Research
>>>>>>
>>>>>> ------------------------------------------------------------------------------
>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>> professionals.
>>>>>> Meet
>>>>>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>> Barbarian
>>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>>> _______________________________________________
>>>>>> Gmod-gbrowse mailing list
>>>>>> Gmod-gbrowse@lists.sourceforge.net
>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>
>>>>>>
>>>>>
>>>>> --
>>>>> View this message in context:
>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23770641.html
>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>
>>>>>
>>>>> ------------------------------------------------------------------------------
>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>>> is a gathering of tech-side developers & brand creativity
>>>>> professionals.
>>>>> Meet
>>>>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>> Barbarian
>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>> _______________________________________________
>>>>> Gmod-gbrowse mailing list
>>>>> Gmod-gbrowse@lists.sourceforge.net
>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> ------------------------------------------------------------------------
>>>> Scott Cain, Ph. D.                                   scott at scottcain
>>>> dot net
>>>> GMOD Coordinator (http://gmod.org/)                     216-392-3087
>>>> Ontario Institute for Cancer Research
>>>>
>>>> ------------------------------------------------------------------------------
>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>> is a gathering of tech-side developers & brand creativity professionals.
>>>> Meet
>>>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>> Barbarian
>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>> _______________________________________________
>>>> Gmod-gbrowse mailing list
>>>> Gmod-gbrowse@lists.sourceforge.net
>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>
>>>>
>>>
>>> --
>>> View this message in context:
>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23784718.html
>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>
>>>
>>> ------------------------------------------------------------------------------
>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>> is a gathering of tech-side developers & brand creativity professionals.
>>> Meet
>>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>> Barbarian
>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>> _______________________________________________
>>> Gmod-gbrowse mailing list
>>> Gmod-gbrowse@lists.sourceforge.net
>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>
>>
>>
>>
>> --
>> ------------------------------------------------------------------------
>> Scott Cain, Ph. D.                                   scott at scottcain
>> dot net
>> GMOD Coordinator (http://gmod.org/)                     216-392-3087
>> Ontario Institute for Cancer Research
>>
>> ------------------------------------------------------------------------------
>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>> is a gathering of tech-side developers & brand creativity professionals.
>> Meet
>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>> iPhoneDevCamp as they present alongside digital heavyweights like
>> Barbarian
>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>> _______________________________________________
>> Gmod-gbrowse mailing list
>> Gmod-gbrowse@lists.sourceforge.net
>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>
>>
>
> --
> View this message in context: http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23786967.html
> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>
>
> ------------------------------------------------------------------------------
> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
> is a gathering of tech-side developers & brand creativity professionals. Meet
> the minds behind Google Creative Lab, Visual Complexity, Processing, &
> iPhoneDevCamp as they present alongside digital heavyweights like Barbarian
> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
> _______________________________________________
> Gmod-gbrowse mailing list
> Gmod-gbrowse@lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>



--
------------------------------------------------------------------------
Scott Cain, Ph. D.                                   scott at scottcain dot net
GMOD Coordinator (http://gmod.org/)                     216-392-3087
Ontario Institute for Cancer Research

------------------------------------------------------------------------------
Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
is a gathering of tech-side developers & brand creativity professionals. Meet
the minds behind Google Creative Lab, Visual Complexity, Processing, &
iPhoneDevCamp as they present alongside digital heavyweights like Barbarian
Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com 
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Re: Add your own track on chado-based GBrowse

by Dave Clements, GMOD Help Desk :: Rate this Message:

Reply to Author | View Threaded | Show Only this Message

Hi Hee Shin,

There appears to be a typo in the parameter:  "--unist" should be
--uninst".  That should get you closer.

Dave C.

On Mon, Jun 1, 2009 at 2:42 PM, heekim <heekim@...> wrote:

>
> Scott,
>
> I did like :
>
> heekim@bioinfo-apps-5:~/Bio-DB-Das-Chado-0.22$ sudo ./Build install --unist
> 1
> Skipping /usr/local/share/perl/5.8.8/Bio/DB/Das/Chado.pm (unchanged)
> Skipping /usr/local/share/perl/5.8.8/Bio/DB/Das/Chado/Segment.pm (unchanged)
> Skipping /usr/local/share/perl/5.8.8/Bio/DB/Das/Chado/Segment/Feature.pm
> (unchanged)
> Skipping /usr/local/man/man3/Bio::DB::Das::Chado.3pm (unchanged)
> Skipping /usr/local/man/man3/Bio::DB::Das::Chado::Segment::Feature.3pm
> (unchanged)
> Skipping /usr/local/man/man3/Bio::DB::Das::Chado::Segment.3pm (unchanged)
> Writing /usr/local/lib/perl/5.8.8/auto/Bio/DB/Das/Chado/.packlist
>
> There is no different in GBrowse.
> Thank you.
>
> Hee Shin
>
>
>
> Scott Cain-4 wrote:
>>
>> Hi Hee Shin,
>>
>> One important thing I thought of over the weekend: when you do "sudo
>> ./Build install" you need to add "--uninst 1", because GBrowse 1.X
>> installed adaptors in the architecture dependent libraries, but this
>> installer goes in the independent libraries (which is where it should
>> have been to begin with).  With out the uninst, GBrowse will continue
>> to use the old adaptor because it comes first in the list of paths to
>> use for perl.  You can just rerun the install command:
>>
>>   sudo ./Build install --uninst 1
>>
>> Scott
>>
>>
>> On Fri, May 29, 2009 at 4:59 PM, heekim <heekim@...> wrote:
>>>
>>> Scott,
>>>
>>> I downloaded Bio-DB-Das-Chado-0.22 and then do the followings, perl
>>> ./Build
>>> -> sudo ./Build -> sudo ./Build test -> sudo ./Build install.
>>> There was no error.
>>>
>>> But I couldn't get the user defined track in the GB.
>>> I also checked the error log file for Apache, I had the same error
>>> message
>>> that i reported in the earlier thread.
>>>
>>> Thank you
>>>
>>> Hee Shin
>>>
>>>
>>> Scott Cain-4 wrote:
>>>>
>>>> Hi Hee Shin,
>>>>
>>>> I don't currently have an instance of GBrowse2 installed but I do have
>>>> GBrowse pre-1.70 and it does work with the most current release of
>>>> Bio::DB::Das::Chado (version 0.22).  Have you tried that version with
>>>> GBrowse2?
>>>>
>>>> Scott
>>>>
>>>> On Fri, May 29, 2009 at 2:10 PM, heekim <heekim@...> wrote:
>>>>>
>>>>> Scott,
>>>>>
>>>>> I have two versions of GBrowse. One is v1.68, which is running
>>>>> BeetleBase.
>>>>> the other is v2.0, which is the newest version and is running my test
>>>>> server.
>>>>>
>>>>> I tried to load user-defined data in both machines.
>>>>> Both of them did not work.
>>>>>
>>>>> It seems to me that Chado-Based GBrowse doesn't support the function.
>>>>> Thank you.
>>>>>
>>>>> Hee Shin
>>>>>
>>>>>
>>>>> Scott Cain-4 wrote:
>>>>>>
>>>>>> Hi Hee Shin,
>>>>>>
>>>>>> Since there have been a lot of changes to the Chado adaptor since
>>>>>> GBrowse 1.68 came out, could you try updating your Chado adaptor from
>>>>>> cpan?  If you don't get version 0.22 you'll need to add the fix to
>>>>>> Segment.pm that mentioned a few emails back.
>>>>>>
>>>>>> Scott
>>>>>>
>>>>>>
>>>>>> On Thu, May 28, 2009 at 5:39 PM, heekim <heekim@...> wrote:
>>>>>>>
>>>>>>> in this time, I got an error like:
>>>>>>> [Thu May 28 16:15:34 2009] [error] [client 85.177.47.107] Use of
>>>>>>> uninitialized value in pattern match (m//) at
>>>>>>> /usr/local/lib/perl/5.8.8/Bio/DB/Das/Chado.pm line 706, <FILE> line
>>>>>>> 109.,
>>>>>>> referer:
>>>>>>> http://beetlebase.org/cgi-bin/gbrowse_details/BeetleBase3.gff3?name=TC000925;class=gene%3ACurated;ref=ChLG2;start=10353648;end=10374620;feature_id=323307
>>>>>>>
>>>>>>> I don't have others than this.
>>>>>>> I am not sure if you accessed to it.
>>>>>>>
>>>>>>> Hee Shin
>>>>>>>
>>>>>>>
>>>>>>> Scott Cain-4 wrote:
>>>>>>>>
>>>>>>>> Hi Heekim,
>>>>>>>>
>>>>>>>> I'm getting the feeling the category thing is a red herring.
>>>>>>>>  There's
>>>>>>>> nothing else in the error log?
>>>>>>>>
>>>>>>>> Scott
>>>>>>>>
>>>>>>>>
>>>>>>>> On Thu, May 28, 2009 at 5:05 PM, heekim <heekim@...> wrote:
>>>>>>>>>
>>>>>>>>> I got still the same error.
>>>>>>>>>
>>>>>>>>> Hee
>>>>>>>>>
>>>>>>>>> Scott Cain-4 wrote:
>>>>>>>>>>
>>>>>>>>>> What happens if you add a category to the track definition in the
>>>>>>>>>> upload?  Like this:
>>>>>>>>>>
>>>>>>>>>> [expression]
>>>>>>>>>> glyph = xyplot
>>>>>>>>>> graph_type=boxes
>>>>>>>>>> fgcolor = black
>>>>>>>>>> bgcolor = red
>>>>>>>>>> height=100
>>>>>>>>>> min_score=0
>>>>>>>>>> max_score=110
>>>>>>>>>> label=1
>>>>>>>>>> key=Expression Level
>>>>>>>>>> category=upload
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> Scott
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> On Thu, May 28, 2009 at 4:56 PM, heekim <heekim@...> wrote:
>>>>>>>>>>>
>>>>>>>>>>> it is in sub tableize,
>>>>>>>>>>>
>>>>>>>>>>>  # checks if this is about to rendered and if it is set the
>>>>>>>>>>> correct
>>>>>>>>>>> row/columns lengths
>>>>>>>>>>>  if ( defined $categorytable{$category} ) {
>>>>>>>>>>> <---------------------- here is line 2925
>>>>>>>>>>>    @column_labels=@{$categorytable{$category}{row_labels}};
>>>>>>>>>>>    @row_labels=@{$categorytable{$category}{col_labels}};
>>>>>>>>>>>    $rows    =$#row_labels+1;
>>>>>>>>>>>    $columns =$#column_labels+1;
>>>>>>>>>>>  }
>>>>>>>>>>>
>>>>>>>>>>> Thank you
>>>>>>>>>>> Hee
>>>>>>>>>>>
>>>>>>>>>>> Scott Cain-4 wrote:
>>>>>>>>>>>>
>>>>>>>>>>>> Hi Heekim,
>>>>>>>>>>>>
>>>>>>>>>>>> Can you tell us what line 2925 of your instance of gbrowse is?
>>>>>>>>>>>>  I
>>>>>>>>>>>> don't have that version installed, so it is a little difficult
>>>>>>>>>>>> to
>>>>>>>>>>>> debug.
>>>>>>>>>>>>
>>>>>>>>>>>> Scott
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> On Thu, May 28, 2009 at 3:28 PM, heekim <heekim@...> wrote:
>>>>>>>>>>>>>
>>>>>>>>>>>>> Hi Lincoln
>>>>>>>>>>>>>
>>>>>>>>>>>>> There is an error.
>>>>>>>>>>>>> [Thu May 28 14:21:30 2009] [error] [client 129.130.115.205] Use
>>>>>>>>>>>>> of
>>>>>>>>>>>>> uninitialized value in hash element at /usr/lib/cgi-bin/gbrowse
>>>>>>>>>>>>> line
>>>>>>>>>>>>> 2925.,
>>>>>>>>>>>>> referer:
>>>>>>>>>>>>> http://www.beetlebase.org/cgi-bin/gbrowse/BeetleBase3.gff3/
>>>>>>>>>>>>>
>>>>>>>>>>>>> Hee
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> Lincoln Stein-3 wrote:
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Is there an error in the apache error log?
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Lincoln
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> On Thu, May 28, 2009 at 2:52 PM, heekim <heekim@...>
>>>>>>>>>>>>>> wrote:
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Hi,
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Does the chado-based GBrowse support uploaded tracts?
>>>>>>>>>>>>>>> One of our ousers claimed that he cannot load his data tract.
>>>>>>>>>>>>>>> Following instruction, I tried to do it again.
>>>>>>>>>>>>>>> It seems that It doesn't work.
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Thank you
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Hee
>>>>>>>>>>>>>>> --
>>>>>>>>>>>>>>> View this message in context:
>>>>>>>>>>>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23767794.html
>>>>>>>>>>>>>>> Sent from the gmod-gbrowse mailing list archive at
>>>>>>>>>>>>>>> Nabble.com.
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd,
>>>>>>>>>>>>>>> NYC.
>>>>>>>>>>>>>>> CaT
>>>>>>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>>>>>>> professionals.
>>>>>>>>>>>>>>> Meet
>>>>>>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>>>>>>> Processing,
>>>>>>>>>>>>>>> &
>>>>>>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights
>>>>>>>>>>>>>>> like
>>>>>>>>>>>>>>> Barbarian
>>>>>>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>>>>>>> Gmod-gbrowse@...
>>>>>>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> --
>>>>>>>>>>>>>> Lincoln D. Stein
>>>>>>>>>>>>>> Director, Informatics and Biocomputing Platform
>>>>>>>>>>>>>> Ontario Institute for Cancer Research
>>>>>>>>>>>>>> 101 College St., Suite 800
>>>>>>>>>>>>>> Toronto, ON, Canada M5G0A3
>>>>>>>>>>>>>> 416 673-8514
>>>>>>>>>>>>>> Assistant: Renata Musa <Renata.Musa@...>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd,
>>>>>>>>>>>>>> NYC.
>>>>>>>>>>>>>> CaT
>>>>>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>>>>>> professionals.
>>>>>>>>>>>>>> Meet
>>>>>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>>>>>> Processing,
>>>>>>>>>>>>>> &
>>>>>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights
>>>>>>>>>>>>>> like
>>>>>>>>>>>>>> Barbarian
>>>>>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>>>>>> Gmod-gbrowse@...
>>>>>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> --
>>>>>>>>>>>>> View this message in context:
>>>>>>>>>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23768430.html
>>>>>>>>>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd,
>>>>>>>>>>>>> NYC.
>>>>>>>>>>>>> CaT
>>>>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>>>>> professionals.
>>>>>>>>>>>>> Meet
>>>>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>>>>> Processing,
>>>>>>>>>>>>> &
>>>>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights
>>>>>>>>>>>>> like
>>>>>>>>>>>>> Barbarian
>>>>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>>>>> Gmod-gbrowse@...
>>>>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> --
>>>>>>>>>>>> ------------------------------------------------------------------------
>>>>>>>>>>>> Scott Cain, Ph. D.                                   scott at
>>>>>>>>>>>> scottcain
>>>>>>>>>>>> dot net
>>>>>>>>>>>> GMOD Coordinator (http://gmod.org/)
>>>>>>>>>>>> 216-392-3087
>>>>>>>>>>>> Ontario Institute for Cancer Research
>>>>>>>>>>>>
>>>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC.
>>>>>>>>>>>> CaT
>>>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>>>> professionals.
>>>>>>>>>>>> Meet
>>>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>>>> Processing,
>>>>>>>>>>>> &
>>>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights
>>>>>>>>>>>> like
>>>>>>>>>>>> Barbarian
>>>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>>>> Gmod-gbrowse@...
>>>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> --
>>>>>>>>>>> View this message in context:
>>>>>>>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23769972.html
>>>>>>>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC.
>>>>>>>>>>> CaT
>>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>>> professionals.
>>>>>>>>>>> Meet
>>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>>> Processing,
>>>>>>>>>>> &
>>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>>>>>> Barbarian
>>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>>> _______________________________________________
>>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>>> Gmod-gbrowse@...
>>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> --
>>>>>>>>>> ------------------------------------------------------------------------
>>>>>>>>>> Scott Cain, Ph. D.                                   scott at
>>>>>>>>>> scottcain
>>>>>>>>>> dot net
>>>>>>>>>> GMOD Coordinator (http://gmod.org/)
>>>>>>>>>> 216-392-3087
>>>>>>>>>> Ontario Institute for Cancer Research
>>>>>>>>>>
>>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC.
>>>>>>>>>> CaT
>>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>>> professionals.
>>>>>>>>>> Meet
>>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>>> Processing,
>>>>>>>>>> &
>>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>>>>> Barbarian
>>>>>>>>>> Group, R/GA, & Big Spaceship.
>>>>>>>>>> http://p.sf.net/sfu/creativitycat-com
>>>>>>>>>> _______________________________________________
>>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>>> Gmod-gbrowse@...
>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>> --
>>>>>>>>> View this message in context:
>>>>>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23770120.html
>>>>>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC.
>>>>>>>>> CaT
>>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>>> professionals.
>>>>>>>>> Meet
>>>>>>>>> the minds behind Google Creative Lab, Visual Complexity,
>>>>>>>>> Processing,
>>>>>>>>> &
>>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>>>> Barbarian
>>>>>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>>>>>> _______________________________________________
>>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>>> Gmod-gbrowse@...
>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> --
>>>>>>>> ------------------------------------------------------------------------
>>>>>>>> Scott Cain, Ph. D.                                   scott at
>>>>>>>> scottcain
>>>>>>>> dot net
>>>>>>>> GMOD Coordinator (http://gmod.org/)                     216-392-3087
>>>>>>>> Ontario Institute for Cancer Research
>>>>>>>>
>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>>> professionals.
>>>>>>>> Meet
>>>>>>>> the minds behind Google Creative Lab, Visual Complexity, Processing,
>>>>>>>> &
>>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>>> Barbarian
>>>>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>>>>> _______________________________________________
>>>>>>>> Gmod-gbrowse mailing list
>>>>>>>> Gmod-gbrowse@...
>>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>>
>>>>>>>>
>>>>>>>
>>>>>>> --
>>>>>>> View this message in context:
>>>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23770641.html
>>>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>>>
>>>>>>>
>>>>>>> ------------------------------------------------------------------------------
>>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>>> professionals.
>>>>>>> Meet
>>>>>>> the minds behind Google Creative Lab, Visual Complexity, Processing,
>>>>>>> &
>>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>>> Barbarian
>>>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>>>> _______________________________________________
>>>>>>> Gmod-gbrowse mailing list
>>>>>>> Gmod-gbrowse@...
>>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> ------------------------------------------------------------------------
>>>>>> Scott Cain, Ph. D.                                   scott at
>>>>>> scottcain
>>>>>> dot net
>>>>>> GMOD Coordinator (http://gmod.org/)                     216-392-3087
>>>>>> Ontario Institute for Cancer Research
>>>>>>
>>>>>> ------------------------------------------------------------------------------
>>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>>>> is a gathering of tech-side developers & brand creativity
>>>>>> professionals.
>>>>>> Meet
>>>>>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>>> Barbarian
>>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>>> _______________________________________________
>>>>>> Gmod-gbrowse mailing list
>>>>>> Gmod-gbrowse@...
>>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>>
>>>>>>
>>>>>
>>>>> --
>>>>> View this message in context:
>>>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23784718.html
>>>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>>>
>>>>>
>>>>> ------------------------------------------------------------------------------
>>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>>> is a gathering of tech-side developers & brand creativity
>>>>> professionals.
>>>>> Meet
>>>>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>>> Barbarian
>>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>>> _______________________________________________
>>>>> Gmod-gbrowse mailing list
>>>>> Gmod-gbrowse@...
>>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> ------------------------------------------------------------------------
>>>> Scott Cain, Ph. D.                                   scott at scottcain
>>>> dot net
>>>> GMOD Coordinator (http://gmod.org/)                     216-392-3087
>>>> Ontario Institute for Cancer Research
>>>>
>>>> ------------------------------------------------------------------------------
>>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>>> is a gathering of tech-side developers & brand creativity professionals.
>>>> Meet
>>>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>>> Barbarian
>>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>>> _______________________________________________
>>>> Gmod-gbrowse mailing list
>>>> Gmod-gbrowse@...
>>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>>
>>>>
>>>
>>> --
>>> View this message in context:
>>> http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23786967.html
>>> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>>>
>>>
>>> ------------------------------------------------------------------------------
>>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>>> is a gathering of tech-side developers & brand creativity professionals.
>>> Meet
>>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>>> iPhoneDevCamp as they present alongside digital heavyweights like
>>> Barbarian
>>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>>> _______________________________________________
>>> Gmod-gbrowse mailing list
>>> Gmod-gbrowse@...
>>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>>
>>
>>
>>
>> --
>> ------------------------------------------------------------------------
>> Scott Cain, Ph. D.                                   scott at scottcain
>> dot net
>> GMOD Coordinator (http://gmod.org/)                     216-392-3087
>> Ontario Institute for Cancer Research
>>
>> ------------------------------------------------------------------------------
>> Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT
>> is a gathering of tech-side developers & brand creativity professionals.
>> Meet
>> the minds behind Google Creative Lab, Visual Complexity, Processing, &
>> iPhoneDevCamp as they present alongside digital heavyweights like
>> Barbarian
>> Group, R/GA, & Big Spaceship. http://p.sf.net/sfu/creativitycat-com
>> _______________________________________________
>> Gmod-gbrowse mailing list
>> Gmod-gbrowse@...
>> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>>
>>
>
> --
> View this message in context: http://www.nabble.com/Add-your-own-track-on-chado-based-GBrowse-tp23767794p23820506.html
> Sent from the gmod-gbrowse mailing list archive at Nabble.com.
>
>
> ------------------------------------------------------------------------------
> OpenSolaris 2009.06 is a cutting edge operating system for enterprises
> looking to deploy the next generation of Solaris that includes the latest
> innovations from Sun and the OpenSource community. Download a copy and
> enjoy capabilities such as Networking, Storage and Virtualization.
> Go to: http://p.sf.net/sfu/opensolaris-get
> _______________________________________________
> Gmod-gbrowse mailing list
> Gmod-gbrowse@...
> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>



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Learn more about GMOD at:
  SMBE: http://ccg.biology.uiowa.edu/smbe/symposia.php?action=view&sym_ID=27
  Arthropod Genomics: http://www.k-state.edu/agc/symp2009/seminar.html
  AGA Next Gen Seq in Non-Models: http://www.regonline.com/Nextgeneration

------------------------------------------------------------------------------
OpenSolaris 2009.06 is a cutting edge operating system for enterprises
looking to deploy the next generation of Solaris that includes the latest
innovations from Sun and the OpenSource community. Download a copy and
enjoy capabilities such as Networking, Storage and Virtualization.
Go to: http://p.sf.net/sfu/opensolaris-get
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