- Blixem bug fix in sorting features, RT 473624
- Compilation of the seqtools in parallel, RT 467905
- Fix bug with sorting by similarity/identity to first sequence (RT:473624)
- Fix an error compiling with multiple threads (RT:467905)
Blixem
- Added functionality to shift-select a range of coordinates,
and copy the reference/match sequence for that range.
- DNA search now highlights the resultant range of coordinates.
- Added a splitter bar to allow the variations track to be resized.
- Dotter
Fix a crash pressing Esc on an undocked alignment or greyramp tool.
- All
Code reorganisation: the codebase is now in C++ rather than C,
and a new module 'gbtools' has been created for generic
utility functions.
- Blixem
o Previously-unsupported GFF feature types can now be displayed
as a new 'basic feature' type.
o Styles are now applied to the detail view as well as the big
picture, so feature display is more consistent across the two
views.
o Fix a bug where styles were not being applied to
dynamically-loaded features.
- Dotter
o Added a 'maximise' button for the greyramp tool.
o Small fixes to inconsistencies in context-sensitive menus and
keyboard shortcuts.
- Blixem
o Added the facility to run Dotter on an ad-hoc sequence (RT:408836).
o Added the facility to run Dotter against a transcript.
- Dotter
Minimise the greyramp tool to a simple contrast slider. Use
Ctrl-G to toggle between this and the full greyramp tool.
- Belvu
Fix a bug with tree bootstrapping in Belvu.
Where possible, correct a few instances where PORTDOCS was being used
to flag stuff in EXAMPLESDIR. For some ports, mostly those owned by
ruby@, PORTDOCS is applied to pretty much everything whether it's
documentation or example.
Blixem is an interactive browser of pairwise alignments that have
been stacked up in a "master-slave" multiple alignment; it is not
a 'true' multiple alignment but a 'one-to-many' alignment.
Belvu is a multiple sequence alignment viewer and phylogenetic tool.
Dotter is a graphical dot-matrix program for detailed comparison
of two sequences.
WWW: http://www.sanger.ac.uk/resources/software/seqtools/
PR: ports/183801
Submitted by: Kurt Jaeger <fbsd-ports opsec.eu>
