Sequence.index

Jalview Developers
1

This field should hold the position (offset) of a sequence in an alignment, but it looks like it is never used, and only set when an alignment file is read in, and never maintained thereafter, e.g. if sequences are reordered. I suggest we delete it?

Mungo

The University of Dundee is a registered Scottish Charity, No: SC015096

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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
g.m.carstairs@dundee.ac.uk

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2

It was a hangover from the first implementation of he TCoffee scheme.

This field should hold the position (offset) of a sequence in an alignment, but it looks like it is never used, and only set when an alignment file is read in, and never maintained thereafter, e.g. if sequences are reordered. I suggest we delete it?

Surprised it lasted this long!

Jim.

The University of Dundee is a registered Scottish Charity, No: SC015096

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On 13/11/2017 09:21, Mungo Carstairs (Staff) wrote: