[Jalview-discuss] Three questions about Jalview

Jim Procter jprocter at compbio.dundee.ac.uk
Mon Mar 30 13:56:22 BST 2015

Just to follow up on Mungo's reply to your email Muhammad:

On 30/03/2015 09:09, Mungo Carstairs (Staff) wrote:
> 2. Jalview has no 'magic button' to identify protein domains but is 
> intended to support workflows aimed at doing this (amongst others).
I suggest you try 'Domaination' - which allows denovo identification of 
domains by iterative blast: http://www.ibi.vu.nl/programs/domainationwww/

This server allows you to export results to Jalview for further 
analysis. You could also run interproscan - which we will be including 
support for in the near future.

> 3. Please enable Java Console (Tools | Show Java Console) and capture 
> any error message when trying to save files and we can take a look at 
> this. There could be range of causes such as lacking write permission 
> to the target directory.

Please also try webstart launching Jalview via

It may be that there is a specific problem with the  installAnywhere 
Jalview installer.

Dr JB Procter, Jalview Coordinator, The Barton Group
Division of Computational Biology, College of Life Sciences
University of Dundee, Dundee DD1 5EH, UK.
+44 1382 388734 | www.jalview.org | www.compbio.dundee.ac.uk
The University of Dundee is registered Scottish charity: No.SC015096

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