[Gmod-help] Re: [Gmod-gbrowse] user upload of wiggle formatted files

[cwilks]

Hi Dave,

Thanks for the response.  I tried that (lowered the span to 10 so they 
wouldn't overlap).  Still didn't appear to work (same issues as 
before).  A user who submitted the original sample said it worked fine 
on wormbase, so I'm wondering what we're doing wrong (or not doing) here 
on our gbrowse instance.

Chris


Dave Clements, GMOD Help Desk wrote:

>Hi Chris,
>
>I don't have an obvious solution to this.  However, I did notice that
>some of the positions (+ step) given in the example data overlap with
>each other.  I don't know if the behavior of overlapping spans is
>defined.  Does the problem go away if the regions no longer overlap?
>
>Dave C.
>
>On Tue, Jul 28, 2009 at 4:20 PM, cwilks<cwilks at stanford.edu> wrote:
>  
>
>>Hi Folks,
>>
>>We've upgraded to Gbrowse 1.7 currently on our web server.  However,
>>we're still having trouble allowing user uploads of wiggle formatted
>>data (even a very small sample file).  We were wondering if there was
>>anything special to be done: a) on the gbrowse configuration and/or b)
>>with apache's configuration to allow this to happen?
>>
>>The problem we're seeing is that when a user uploads a file, the refresh
>>of the gbrowse page either displays a completely white screen or it
>>displays only the header or top part of the page above where the region
>>image is normally displayed.  I've checked the apache logs and there's
>>nothing specific regarding this.
>>
>>I'm pasting sample wiggle text which we've tried, unsuccessfully to upload:
>>
>>track type=wiggle_0 name="testWIG1"
>>variableStep chrom=Chr1 span=25
>>79 23.0
>>91 4.0
>>308 6.0
>>477 22.0
>>651 30.0
>>663 45.0
>>880 60.0
>>1000 75.0
>>
>>Thanks for any help,
>>Chris Wilks
>>TAIR
>>
>>
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>>    
>>
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