[Jalview-discuss] Automate overview window

[Albert Vilella]

Yes, sorry, I want a PNG image file of the alignment with defined
dimensions in pixels. Something like "do 1000 PNGs of size 1200x800px
for the 1000 clustalw files in this directory".

The tree thingy is optional.

On Tue, Jan 19, 2010 at 10:33 AM, Jim Procter
<jprocter at compbio.dundee.ac.uk> wrote:
> Hi Albert. From you silence, I thought you'd forgotten all about this - but
> clearly you were just thinking about ways of making the task even more
> complex :)
>
> I guess the first question from my reply still stands here - do you really
> need the overview image, or would a rescaled version of the normal PNG
> output be ok ?
>
> Secondly, do you want to calculate the tree on the fly ?  Or do you already
> have a tree in mind that you just want to generate an image from ?
>
> Jim.
>
> On 19/01/2010 09:56, Albert Vilella wrote:
>>
>> Hi Jim,
>>
>> Ah, yes! The PNG output is exactly what I need. I wasn't aware of it.
>>
>> So say I have a directory with the files, what's the commandline to
>> call jalview and generate the PNGs of the overviews?
>>
>> The next question it's going to be, how do I generate the PNG overview
>> with the associated tree at the left-hand side of the image?
>>
>> Cheers,
>>
>> Albert.
>>
>
> --
> -------------------------------------------------------------------
> J. B. Procter  (JALVIEW/ENFIN)  Barton Bioinformatics Research Group
> Phone/Fax:+44(0)1382 388734/345764  http://www.compbio.dundee.ac.uk
> The University of Dundee is a Scottish Registered Charity, No. SC015096.
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