RE: [Biojava-l] File formats

2003-11-21 Thread VERHOEF Frans
nal Message- > From: [EMAIL PROTECTED] [mailto:biojava-l- > [EMAIL PROTECTED] On Behalf Of Rich Heath > Sent: Thursday, November 20, 2003 5:59 PM > To: [EMAIL PROTECTED] > Subject: [Biojava-l] File formats > > Hi, > > I am a software developer based in the UK that has

Re: [Biojava-l] File formats

2003-11-20 Thread Rhett Sutphin
Hi Rich, Matthew, I am also not a lawyer. That in mind, here's my understanding of the topic: First, the org.biojava.bio.program.abi package is based on a paper by Clark Tibbetts (available online: http://www-2.cs.cmu.edu/afs/cs/project/genome/WWW/Papers/clark.html ). That paper was published i

Re: [Biojava-l] File formats

2003-11-20 Thread Matthew Pocock
Hi Rich, We should check this out. This is one of the bizar things about digital IP right now - the data in the abi file is obviosly yours, but potentially you are not alowed to access it in non-blessed ways because the encoding is proprietary. I have a feeling that we would have been in troub

[Biojava-l] File formats

2003-11-20 Thread Rich Heath
Hi, I am a software developer based in the UK that has been asked about producing a piece of software that outputs data from the files in ABI sequencers in a more human readable format. I hope the org.biojava.bio.program.abi package will let me do this, but I have some concerns about the legal im

Re: [Biojava-l] File formats and other questions

2001-05-05 Thread Matthew Pocock
Hi David, David Waring wrote: > I am new to the bioinformatics community and Biojava, so bear with me if > these topics have been discussed before. > > Among the many file formats for DNA sequence data, I see that there is Java > support for Fasta, GFF, and EMBL. In addition to these, I will be

[Biojava-l] File formats and other questions

2001-05-03 Thread David Waring
I am new to the bioinformatics community and Biojava, so bear with me if these topics have been discussed before. Among the many file formats for DNA sequence data, I see that there is Java support for Fasta, GFF, and EMBL. In addition to these, I will be working with a few other formats and am w