RE: [Biojava-l] Different implementation of Sequence?

Having created the indices as following and restarted postmaster, the performance of feature filtering is even worse. Maybe MySQL is a better choice than PostgreSQL. Does anyone have the similar experience? George > -Original Message- > From: Thomas Down [mailto:[EMAIL PROTECTED] > Sent:

[Biojava-l] Should Alignment extend Sequence?

There was a good bit of discussion on this list in the middle of last month about making changes to the SequencePanel and TranslatedSequencePanel classes to allow them to be given SymbolLists instead of Sequences, particularly for the purpose of being able to display Alignments. I couldn't tell i

Re: [Biojava-l] Different implementation of Sequence?

On Thursday 05 Jun 2003 6:07 pm, Y D Sun wrote: > Having created the indices as following and restarted postmaster, the > performance of feature filtering is even worse. Maybe MySQL is a better > choice than PostgreSQL. Does anyone have the similar experience? > Was the access code exactly as you d

Re: [Biojava-l] Different implementation of Sequence?

Once upon a time, David Huen wrote: > On Thursday 05 Jun 2003 6:07 pm, Y D Sun wrote: > > Having created the indices as following and restarted postmaster, the > > performance of feature filtering is even worse. Maybe MySQL is a better > > choice than PostgreSQL. Does anyone have the similar experi

RE: [Biojava-l] Should Alignment extend Sequence?

The only drawback with Alignment extending sequence is that it would break all the implementations of the Alignment Interface. One possibility would be to make a SubInterface of Alignment that extends Alignment and Sequence and then make an implementation of that. Your wrapper class would be one

RE: [Biojava-l] Different implementation of Sequence?

> -Original Message- > From: Thomas Down [mailto:[EMAIL PROTECTED] > Sent: 05 June 2003 22:58 > To: [EMAIL PROTECTED] > Cc: Y D Sun; Thomas Down; [EMAIL PROTECTED] > Subject: Re: [Biojava-l] Different implementation of Sequence? > > > Once upon a time, David Huen wrote: > > On Thursday

Re: [Biojava-l] Different implementation of Sequence?

On Fri, Jun 06, 2003 at 10:33:28AM +0100, Y D Sun wrote: > > > -Original Message- > > From: Thomas Down [mailto:[EMAIL PROTECTED] > > Sent: 05 June 2003 22:58 > > To: [EMAIL PROTECTED] > > Cc: Y D Sun; Thomas Down; [EMAIL PROTECTED] > > Subject: Re: [Biojava-l] Different implementation of

RE: [Biojava-l] Different implementation of Sequence?

Hi Thomas, I download the Embl files from http://www.ebi.ac.uk/cgi-bin/genomes/genomes.cgi?genomes=Bacteria In the list, for example, No. 11 (BA40) and 88 (BA30) are large files. I find a problem in my PostgreSQL installation. I didn't build JDBC driver in it. Is this the cause of poor

Re: [Biojava-l] Different implementation of Sequence?

On Thursday, June 5, 2003, at 04:17 AM, Thomas Down wrote: schema. MySQL implicitly creates an index for the primary key of a table, while PostgreSQL does not). PostgreSQL automatically generates indexes for any UNIQUE column, which includes primary keys. -- begin psql session test=> CREATE TAB

[Biojava-l] NCBI Blast

Hi, Just a quick question: is there an equivalent class to Bio::Tools::Run::RemoteBlast (bioperl) in the biojava framework? I had a look in the archive of this mailing list, but I didn't find anything. Best regards, Mat. __ Do you Yahoo!? Yahoo! Calendar - Free

[Biojava-l] Call for participation: June 23-26, 2003,CS & CE Conferences, Las Vegas

Call For Participation == The 2003 International Multiconference in Computer Science and Computer Engineering (15 Joint Int'l Conferences) Monte Carlo Resort, Las Vegas, Nevada, USA