EMBOSS: Project Meeting (Mon 6th August 07)
Following a user request, Mahmut has started to review possible XML output formats, for sequences and reports/features.
Peter recommended Paul Gordon's XML page in Calgary for a list of known formats.
Martin is working with Mahmut on JAX-WS use for SoapLab 2. Shaun's ACD parser is still needed, but a preliminary release of SoapLab 2 can go ahead without it.
Alan produced the release on July 15th.
Jon has drafted the AJAX development sections. Examples will be inserted by hand with the aim of generating them for future updates.
The developer book has separate sections for ACD inputs and for programming using AJAX data structures.
Some AJAX function name cleanup is still required.
The other remaining large section is EMBOSS command line usage for the user book.
Peter also made contact with the authors of ViennaRNA and MIRA fragment assembly system.
Peter has joined an active discussion on the bionet.software.gcg newsgoup (also the info-gcg mailing list) where users are debating their alternatives, and are especially ineterested in the continuing development of the SeqLab interface which was originally available as "GDE". It will be much easier for the remaining GCG users to migrate to EMBOSS if we can support GDE/SeqLab, but this depends on Accelrys finding some way to release the code.
The next meeting is on Monday 20th August.