Re: [Gmod-gbrowse] BigWig files uploading errors

[Fields, C. J <cjf...@il...>]

Yep, you are correct.  Both would be installed in the full Bio-Bigfile distribution.

chris

From: Scott Cain <sc...@sc...>
Date: Wednesday, October 25, 2017 at 3:33 PM
To: Christopher Fields <cjf...@il...>
Cc: Annie Benitha <ann...@gm...>, GMOD-Gbrowse <gmo...@li...>
Subject: Re: [Gmod-gbrowse] BigWig files uploading errors

Maybe.  I think Bio::DB::BigFile is for "low level" access, whereas Bio::DB::BigWig is for higher level access (like GBrowse would want).  It wouldn't surprise me is BigFile is a prereq for BDBBigWig though.  Obviously, it's been a long time for me too :-)


On Wed, Oct 25, 2017 at 4:27 PM, Fields, Christopher J <cjf...@il...<mailto:cjf...@il...>> wrote:
I think this requires Bio::Bigfile (though it’s been a while since I’ve used Gbrowse to be honest).

https://metacpan.org/pod/Bio::DB::BigFile

chris

From: Annie Benitha <ann...@gm...<mailto:ann...@gm...>>
Date: Wednesday, October 25, 2017 at 3:22 PM
To: GMOD-Gbrowse <gmo...@li...<mailto:gmo...@li...>>, Scott Cain <sc...@sc...<mailto:sc...@sc...>>
Subject: [Gmod-gbrowse] BigWig files uploading errors

Hi Scott,

I tried uploading bigwig files (.bw) on Gbrowse, but it throws an exception that it cannot upload such files.

[Inline image 1]


What is the alternative?

Do I have to convert it to gff3 to proceed?

Thanks
Annie



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