EMBOSS: Project Meeting (Feb 14th 2000)


Sanger Centre: Peter Rice, Ian Longden, Richard Bruskiewich
HGMP: Alan Bleasby, Gary Williams, Sinead O'Leary, Mark Faller
Apologies: Val Curwen

1. Matters Arising

2. General progress on release 0.0.4

Peter has implemented a log file. The variable emboss_logfile points to the full parth of the log file and should be set in emboss.default

PNG graphics character sizes have been adjusted to give reasonable output. There were also problems with library versions in Norway, now resolved.

The first PNG output file is still blank. The workaround for now is to delete the first file. Ian has contacted the author of the PNG library.

Pepinfo is not yet changed to remove the extra prompt for graphics output. Peter will investigate.

XML output from ACD is still in progress, as is the entrails program to report internal data structures.

infoseq output is sometimes tabs and sometimes spaces. The documentation will say "tabs or spaces". There could be similar issues with other report programs (showseq, embossdata, showdb, wossname)

HGMP now have all the main databases indexed and working with subsets. The definitions can be added to the database documentation.

dbiflat has an option not to exclude files on input so that indices to subsets can be built.

Ian is working on reading and writing feature tables. Crashes have been removed where there were hooks to code not yet written. seqretfeat can now read swissprot format external feature files. EMBL will be tackled next, and the provision of swissprot format output feature tables.

4. Any Other Business

Richard has successfully built the AJAX library as a DLL on Windows NT. There were errors with the NUCLEUS build still to be resolved.

Richard will discuss the ACEDB GTK library with Simon Kelley.

5. Next meeting

Next meeting will be Monday 21st February 2000, 11:00am, usual place.