Subject: Re: [Biojava-l] BLAST from Java

2002-02-20 Thread Tony Obermeit
Thomas Down wrote > I'm not a Windows user. But one thing which occurs to > me: you're handling the output of the process on the same > thread as the Process itself. I always use separate threads > (I don't know if this is the `official' way of doing things, > but it's a pragmatic approach wh

RE: [Biojava-l] BLAST from Java

2002-02-20 Thread Russell Smithies
#x27;s nothing too tricky about running it but being able to use some of Biojavas other methods on the results might be handy. Russell > -Original Message- > From: Thomas Down [mailto:[EMAIL PROTECTED]] > Sent: Wednesday, 20 February 2002 9:16 p.m. > To: Russell Smithies >

Re: [Biojava-l] BLAST from Java

2002-02-20 Thread Colin Hardman
Thomas Down wrote > I'm not a Windows user. But one thing which occurs to > me: you're handling the output of the process on the same > thread as the Process itself. I always use separate threads > (I don't know if this is the `official' way of doing things, > but it's a pragmatic approach wh

Re: [Biojava-l] BLAST from Java

2002-02-20 Thread Simon Brocklehurst
Russell Smithies wrote: > Has anyone had any luck running Blast locally from Java using Runtime.exec() > and command array?? Yes ;-) Running native executables via Runtime.exec() works fine for us - but almost all the Runtime.exec() code we have written is designed to run under Unix. Runtime.e

Re: [Biojava-l] BLAST from Java

2002-02-20 Thread Thomas Down
Hmmm, are you saying that the command works okay via a batch file, but not if you exec it directly? Very strange... I'm not a Windows user. But one thing which occurs to me: you're handling the output of the process on the same thread as the Process itself. I always use separate threads (I don