[emboss-dev] EMBOSS patch set 1-24 available. New mEMBOSS available.
ajb at ebi.ac.uk
ajb at ebi.ac.uk
Wed Oct 5 15:06:32 UTC 2011
New bug-fix files are available for EMBOSS-6.4.0 and, for Windows
users, a new version of mEMBOSS is available.
The bugs fixed include those recently fixed (22-24), listed below,
and all those fixed by previous patches (1-21).
1) UNIX
As usual, the most convenient way of applying the bug-fixes is
to apply the patch file:
ftp://emboss.open-bio.org/pub/EMBOSS/fixes/patches/patch-1-24.gz
to a freshly extracted copy of the EMBOSS-6.4.0.tar.gz source code
and recompiling/installing.
(see ftp://emboss.open-bio.org/pub/EMBOSS/fixes/patches/README.patch
for instructions on using 'patch').
Alternatively, you can individually copy the patched files
from the ftp://emboss.open-bio.org/pub/EMBOSS/fixes/ directory
if your system does not support 'patch'.
2) mEMBOSS
The new version incorporates all new and previous bug-fixes.
Uninstall your previous mEMBOSS installation and download and install
the new setup file from:
ftp://emboss.open-bio.org/pub/EMBOSS/windows/mEMBOSS-6.4.0.4-setup.exe
Alan
-----------------------------------------------------------------------
Fix 22. EMBOSS-6.4.0/emboss/diffseq.c
EMBOSS-6.4.0/ajax/core/ajreport.c
14-Sep-2011: Diffseq reports insertions in the second sequence with a
length 2 reversed region in the first sequence instead of
a length 0 empty sequence. This bug was introduced in
release 6.0.0 when reversed sequence features were updated.
Fix 23. EMBOSS-6.4.0/ajax/core/ajindex.c
04-Oct-2011: Dbx index files from earlier releases do not include a
type parameter to indicate an Identifier or Secondary
index. The code to test index field names failed to
define id and acc fields as Identifiers. This fix allows
old indexes to work with EMBOSS 6.4.0.
Fix 24. EMBOSS-6.4.0/ajax/core/ajfileio.c
05-Oct-2011: Trimming carriage controls from the ends of lines in a
buffer failed when MacOSX-style characters are used and
the line buffer is a reference counted string. An example
on non-MacOSX systems was processing the data returned by
the NCBI Entrez server.
More information about the emboss-dev
mailing list