EMBOSS: Project Meeting (Feb 15th 1999)
IL has tested the string library through purify and fixed several bugs and inconsistencies. Purify is now also installed at HGMP.
AJB would like to look further into the automake and autoconf files.
The current CVS tree is almost ready for release to EMBnet developers.
PR has not yet looked into the WISE code, but will do so to identify useful code for the EMBOSS libraries.
PR proposed a simple syntax for conditionals:
ifeq: cmpname [ default: $(sequence.type) value: P true: blosum62 false: dnasimple ]
Separate "if" types could be defined for various conditionals. An "else" could be allowed to negate the prvious if, or it could be covered by the syntax above.
ACD examples are needed for applications that would make use of this.
All EGCG applications were reviewed. Some were defined as "obsolete". Some were already in EMBOSS (for example many are sequence conversion applications replaced by "seqret" and "seqretall"). Others were assigned either as needing replacement or as general functions that would be needed (for example "pattern matching"). In some cases they were assigned to external packages (e.g. CINEMA) to be integrated.
Most were assigned to HGMP for development. See the applications web pages for the full list.
An EMBOSS database format could be included in this, together with GCG and blast databases.