Shall I comment out lines 178-179 of ws.dbsources.Pdb?
That would mean getting a sequence name like
4WV3|A
instead of
PDB>4wv3|4WV3|A
or do we want the half-way house
PDB>4WV3|A
mungo
The University of Dundee is a registered Scottish Charity, No: SC015096
···
Mungo Carstairs
Jalview Computational Scientist
The Barton Group
Division of Computational Biology
School of Life Sciences
University of Dundee, Dundee, Scotland, UK.
www.jalview.org
www.compbio.dundee.ac.uk
The halfway house is, strictly speaking, the valid choice.
If we are really brave and drop the database name prefix then we should also do it for all the other dbsources (Ensembl, Uniprot, EMBL, etc). I think we should be brave !
See: http://issues.jalview.org/browse/JAL-2203
···
From: jalview-dev-bounces@jalview.org jalview-dev-bounces@jalview.org on behalf of Mungo Carstairs (Staff) g.m.carstairs@dundee.ac.uk
Sent: 16 September 2016 12:33:00
To: jalview-dev@jalview.org
Subject: [Jalview-dev] PDB sequence naming
Shall I comment out lines 178-179 of ws.dbsources.Pdb?
That would mean getting a sequence name like
4WV3|A
instead of
PDB|4wv3|4WV3|A
or do we want the half-way house
PDB|4WV3|A
mungo
The University of Dundee is a registered Scottish Charity, No: SC015096
The University of Dundee is a registered Scottish Charity, No: SC015096
Mungo Carstairs
Jalview Computational Scientist
The Barton Group
Division of Computational Biology
School of Life Sciences
University of Dundee, Dundee, Scotland, UK.
www.jalview.org
www.compbio.dundee.ac.uk