EMBOSS: Project Meeting (Thu 5th Apr 2001)

Attendees

HGMP: Alan Bleasby, Gary Williams, Waqas Awan, Jon Ison, Tim Carver, Lisa Mullan, Ranjeeva Ranasinghe
Lion:
Sanger: Val Curwen
Apologies: Peter Rice

1. Matters Arising

Alan reported that

Ranjeeva reported that the following applications had been completed, documented and committed:
psiblasts - runs PSIBLAST on SCOP family members

Jon reported that the following applications had been completed, documented and committed:
contacts - calculates residue contacts from clean coordinate files
scopalign - runs STAMP over SCOP families (used to be called 'stamps').
swissparse - keyword searches and sequence retrieval from swissprot

He has addded AjPHit & AjPHitlist structures and ajXyzHitlistWrite, ajXyzHitlistRead, ajXyzHitlistNew, ajXyzHitNew, ajXyzHitlistDel, ajXyzHitDel functions for hits of database searches.

Gary has been purging old documentation from Sep 2000. He proposed that the SCOP- and signature-specific stuff could be put into EMBASSY.

Tim reported that the distmat program for calculating evolutionary distances between pairs of aligned sequences has been committed and documented.

Lisa reported that James Bonfield is working on the Spin interface to Staden / EMBOSS.

2. Date Of Next Meeting

Next meeting to be held on Thursday 26th April, HGMP