[EMBOSS] new format EMBL flat files index
Olivier Friard
olivier.friard at unito.it
Tue Jul 4 16:45:44 UTC 2006
Hi,
I try to make indexes for the release 87 of EMBL with new first line format:
* I downloaded EMBOSS-3.0.0
* gunzip, tar xvf ...
* I replaced the files with the files in the fixes directory
* ./configure --prefix= .... ,make, make install
* I indexed my rel_std_*.dat files (db name: embl) with dbiflat
* I wrote a emboss.default file for embl db (showdb works)
but when I try the seqret application I obtained this output:
>.1; .1; Human cytomegalovirus strain AD169 complete genome
gggccgcgtggtgggtcctcgaggggcgggggggtgtttttagcgggggggtgaaacttg
gagttgcgtgtgtggacggcgactagttgcgtgtggtgcggaggacggcgacggcgaata
aaagcgacgtgcggcgcgcacggcgaaaagaagacgcgtgtctgtgtctgtgtgattccc
...
I tried to index these new files with EMBLNEW format (in place of EMBL)
as specified in the README file in the fixes directory but it is not a
valid format.
Does anyone index the new format EMBL flat file successfully?
Thank you for the help
Olivier
--
Olivier Friard
Laboratorio di Biologia Computazionale - Facoltà di Scienze MFN
Università di Torino
via Accademia Albertina 13, 10124 TORINO (Italy)
tel. +39 011 6704689
http://www.personalweb.unito.it/olivier.friard/
More information about the EMBOSS
mailing list