EMBOSS 1.13.2

[ableasby at hgmp.mrc.ac.uk]

This contains bugfixes for REMAP, DBIGCG, DBIBLAST and PEPWINDOW which
were introduced by a code reorganisation in 1.13.0. The
configuration also supports a wider range of libgd installations on
SGI systems (those with math library calls included).

An additional program is:

CUTGEXTRACT: given the name of a directory containing the
   CUTG database  (ftp://ftp.ebi.ac.uk/pub/databases/cutg) this
   will calculate codon usage tables for individual species
   (e.g. EHomo_sapiens.cut) and place them in the CODONS subdirectory
   of the EMBOSS data directory. This is an all-or-nothing extraction,
   will create many files and take several minutes. The usage tables
   are from the sum of codons over all sequences for each organism.

The above program is to be regarded as a release to satisfy demand;
it is intended to build the code into the EMBOSS libraries shortly.
The codon usage tables provided with the distribution are calculated
from the files in (ftp://ftp.ebi.ac.uk/pub/databases/codonusage) with
a few additions whose exact derivation cannot easily be determined.
They will be replaced in future releases by a selection of files derived
from CUTG. As usual, you can specify a required codon usage file using
one of the application options.


The bulk of the code for EMBOSS version 2 has been committed and we
are currently modifying applications to make use of new feature
handling and report code.


Alan