EMBOSS: Project Meeting (Fri 8th July 2005)
1. Minutes of the last meeting
Minutes of the meeting of 13th May 2005 are
2. Software Development
2.1 Database indexing
Peter has some additional clues to formatdb output format for
BLAST databases - but far from complete documentation.
2.2 PolyA sequences
Corell Duvall (attended the developers course) has contributed code
for finding polyA sites in cDN, developed with Peter Ernst at DKFZ.
3.1 CVS commits
Alan proposed temporarily suspending access for those who commit
changes that break builds for everyone else. The £5 fines are not
enough deterrent. Unanimously accepted.
3.2 Mailing Lists
Peter reported discussions at BOSC where Hilmar Lapp asked for
more projects to use Open Bio Foundation resources. Alan
contacted Chris Dagdigian about moving the EMBOSS mailing lists to
Alan reported that a new machine at Open Bio will be given the
FTP access on open-bio.org will be easy to maintain - much simpler than
SourceForge's update system.
Mailing lists will transfer before the release on July
15th. Alan will ask whether RFCGR/HGMP can redirect mails sent
to the old addresses, as Laurent Falquet (SIB) has not yet taken over
the embnet.org addresses.
The mailing list move will be announced as soon as possible to give
users a chance to change over. All existing subscribers will be moved.
3.3 Release 3.0.0
Alan requested a clear 2 days to prepare the release
distributions and test them.
dbx indexing programs are now part of the main build, but announced as
a beta release.
Peter will review all documentation on the sourceforge website
and generate the TFM documentation for the distribution.
Alan has updated configure.in to release "3.0.0", and has added
version numbers to the Ajax and Nucleus libraries to reduce problems
with old versions.
Jon is reviewing all domainatrix tests.
Peter has updated the date for all test runs and example output
to be 15th July 2005 at 12 noon.
Alan has updated the FAQ list to cover X11 and amd64 issues.
4. Documentation & Training
Peter talked to the CUP stand at ISMB. They seemed happy and
understanding over the delay in submitting the books.
Peter reported on the BOSC and ISMB conferences. Peter gave a
talk on EMBOSS at BOSC, and a demo at ISMB well attended, with many
US-based people new to EMBOSS. The demo included various interfaces
and an example of developing a modified version of matcher using
5. User queries and answers
Gary's current list reviewed. Most new issues were already answered.
7. Date Of Next Meeting
Next meeting at 9.30 on July 22nd, 2005,