[Genome] genome browser local copy question

[Ann Zweig]

Hello again Ross,

	I am glad you got your own copy of the browser up and running -- that was fast!

	After Custom Tracks are created, they get placed in a trash directory on our 
server.  Every day we clean out of this directory files that have not been 
touched for the past 48 hours.  So, it's likely that you do not have the 48-hour 
limit.

	Also, it's not out of the question to create your own tracks on your site -- 
plenty of mirror sites do just that.  To do that, you will create a database 
table and a trackDb entry.  Write to me off-list if you think you're interested 
in giving it a try.

	You may consider subscribing to the mail list that pertains to people who 
mirror all or part of the Genome Browser website.  It's relatively low volume 
and is often full of tips about configuring your mirror. 
http://www.soe.ucsc.edu/mailman/listinfo/genome-mirror


Regards,

----------
Ann Zweig
UCSC Genome Bioinformatics Group
http://genome.ucsc.edu



Ross Lazarus wrote:
> Ann, I have a cut down (hg18 only) local build of the genome browser 
> installed and working here, and the genome graphs work fine locally. The 
> docs describe making custom tracks available via urls, but I'm going to 
> guess that adding our own custom tracks so they're available for *all* 
> local users as part of the built-in track list on our local copy of the 
> browser is non trivial? I couldn't find any documentation  on doing that...
> 
> I would like to make some genome graph data available more or less 
> permanently to my investigators on our local copy. I can't find this 
> anywhere in the docs so I'll ask you :) - where is the 48 hour nominal 
> retention time for user uploaded genome graph data configured - I'd like 
> to change it to make these permanent
> 
> Again, thanks in advance for your time in helping me get this figured 
> out and thanks for making this excellent software available!
> 
> Ann Zweig wrote:
>> Hello Ross,
>>
>>     Glad you like the new Genome Graphs tool.  Currently there is no 
>> way to pre-configure the track, nor is there a direct interface to the 
>> tool yet.
>>
>>     You are more than welcome to run the code locally.  The Genome 
>> Browser and Blat software are free for academic, nonprofit, and 
>> personal use. A license is required for commercial use.
>>
>> How to download the software: 
>> http://genome.cse.ucsc.edu/FAQ/FAQlicense#license3
>>
>> You can obtain the source tree either via CVS:
>>     http://genome.ucsc.edu/admin/cvs.html
>> or a zip file:
>>     http://hgdownload.cse.ucsc.edu/admin/jksrc.zip
>>
>> Please note the build instructions:
>>     http://genome.ucsc.edu/admin/jk-install.html
>>
>>     All of the kent utilities output their usage message and command
>> line options by running them with no arguments.
>>
>>
>> Regards,
>>
>> ----------
>> Ann Zweig
>> UCSC Genome Bioinformatics Group
>> http://genome.ucsc.edu
>>
>>
>> Ross Lazarus wrote:
>>> Your new genome graphs utility looks great. I was just about to try 
>>> to write a custom track but am now saved a vast amount of work. We're 
>>> about to get a whole genome snp data set so this might be extremely 
>>> useful for our investigators.
>>>
>>> Is there any way for me to call it with most of the file reading 
>>> values filled in - or are any other more direct machine interface 
>>> (json/soap/whatever) available or planned? We'd be happy to take a 
>>> poke at running it locally if the code is available?
>>>
>