Worm Breeder's Gazette 12(1): 13 (September 1, 1991)

These abstracts should not be cited in bibliographies. Material contained herein should be treated as personal communication and should be cited as such only with the consent of the author.

How to get ACEDB for your Sun

Jean Thierry-Mieg[1], Richard Durbin[2]

[1]CNRS-CRBM, Montpellier, France (mieg@f rmop11 .bitnet)
[2]MRC LMB, Cambridge UK (rd@cele.mrc-lmb.cam.ac.uk)

There is now a publicly available version of the genome database acedb. The current version has only been tested on Sun Sparcstations (however enquire if you can only access another type of Unix workstation running X windows - we may know of someone who is porting it). It runs under X windows, including Sun OpenWindows. The best way to obtain it is by direct file transfer over the network. The files are available in the following public access accounts (anonymous ftp sites) accessible over internet:

1) crim.crim.fr ( in France, in directory pub/acedb

2) cele.mrc-lmb.cam.ac.uk ( in England, in pub/acedb

3) ncbi.nlm.nih.gov ( in the USA, in repository/acedb

In each case, log in as user "anonymous" and give a user identifier as password. Remember to transfer the files in BINARY mode by typing the word "binary" at the start of your ftp session. Many thanks to NCBI for letting us share in their excellent resource. You should get and read the files README and NOTES before proceeding further. There is also an installation script INSTALL for installing the system the first time. If you have a Sun you can use, but are unable to collect the files from one of these sites (or copy them from someone local), then let us know and we will arrange some other way for you to get the data. We strongly encourage use of the network where possible. The public version on 1st August 1991 contains the following data: Bibliography, 2-point and 3-point-data, Lab list, Gazette and Meeting titles and indexes and strain list from the CGC (thanks Mark), the Gene List, the MRC allele list, the C. elegans sequences in EMBL (a little out of date in this version), ZK637 (the first sequencing project cosmid), the JULY-14-1991 physical map, the lengths of YAC's in the physical map, and the first set of cDNA map data. We hope to release cDNA sequences and at least one more cosmid in the next month. If you install the system and have it running, please send mail so you can be added to the mailing list to be notified of updates. We plan to "publish" updates approximately monthly, as with the physical map. These will be put in the same anonymous ftp locations. There is a simple procedure to add them to your version of the database. Future releases of the program will be distributed in the same way. This public version of acedb will communicate with WCS (Schatz et al.) if they are running side by side.

Now that the Sun version is out and running we are turning our attention back to the Mac version. The aim is for this to have exactly the same functionality as the Sun version.