1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
|
--==-- version history --==--
3.00 - Initial open source release
3.01 - Fixed off-by-one error in multi-reference 'mummer' usage
3.02 - Fixed small bug in show-coords. Added additional options
to show-coords. Added extra help text to show-tiling. Changed
contact email address. Consistent padding added to combineMUMs
3.03 - Added HTML user manual in the /docs/htmlmanual/ subdir
3.04 - Fixed combineMUMs bug and added new option, added some developer
support in the src/kurtz subdirectory, and added extra INSTALL
information in the docs
3.05 - Added -k option to show-coords to only display the best frame for
overlapping PROmer alignments. Added --[no]optimize option to nucmer
and promer to allow alignment score optimization to be turned off, i.e
allow alignments to extend to the ends of sequences rather than
backtracking to optimize the alignment score. Updated docs.
3.06 - Added -F and -h option to mummer. Changed -mumcand option to
-mumreference, but left deprecated -mumcand option available. Added
-maxmatch option to mummer, and changed default behavior of all
applicable programs to -mumreference (nucmer, promer and mummer).
Added -w (screen width) option to show-aligns. Updated documentation
with all of these changes.
3.07 - Added the 'mapview' plotting utility and appropriate documentation.
Fixed origin wrap shadowing bug in show-tiling when using the -c option.
NUCmer and PROmer now convert to absolute paths to avoid ambiguity.
3.08 - Added MUMmer examples web docs which gives brief walkthroughs
3.10 - Now Mac OSX compatible. Added -R option to show-tiling.
3.11 - Fixed bug show-tiling -R option. Added some mapview changes. Fixed
the issue with mummerplot being to faint.
3.12 - Added the --nosimplify option to nucmer for repeat searching. Fixed
a bug in nucmer and promer. Fixed rounding issue in show-coords.
Updated citations.
3.13 - Added -d, -g, -G and -o options to show-coords and updated documentation.
Fixed bug in show-tiling -R
3.14 - Fixed gcc3 compilation bug
3.15 - Fixed --nooptimize in nuc/promer.
3.16 - Added 'delta-filter' utility
3.17 - Too many changes to list. Added/improved delta-filter, show-snps,
mummerplot, and mgaps. Multiplot capability added to mummerplot.
3.18 - Fixed bugs in delta-filter, began migrating to delta library.
3.19 - Fixed gcc4 build problem
3.20 - Added 'dnadiff' comparative analysis script, 'show-diff' nucmer
utility, and fixed a number of build issues.
|
