You know, you are more than welcome to add any functionality you desire.
You have made a good point (as supported by Ewan), and besides that, no one
is going to stop you from adding functionality to the code base. This is
open source code, so be open and code...
-mat
___
For those with CVS accounts on the bio{perl|java|python}.org machine.
Chris upgraded the SSH version on the cvs server which triggered a
generation of new keys. You can safely ignore the
MAN-IN-THE-MIDDLE-ATTACK warnings and you'll need to replace the hostkey
for the bio{perl|java|python}.org s
On Mon, 11 Jun 2001, Wiepert, Mathieu wrote:
> You know, you are more than welcome to add any functionality you desire.
> You have made a good point (as supported by Ewan), and besides that, no one
> is going to stop you from adding functionality to the code base. This is
> open source code, so
On Mon, 11 Jun 2001, Ewan Birney wrote:
> On Mon, 11 Jun 2001, Wiepert, Mathieu wrote:
>
> > You know, you are more than welcome to add any functionality you desire.
> > You have made a good point (as supported by Ewan), and besides that, no one
> > is going to stop you from adding functionality
Thought I'd jump in here as I've found the blast xml parser quite useful
and have created a partial blast object backend to it. It was one of those
quick and dirty implementations as I needed it quickly, so the code isn't
of biojava quality at the moment, but I plan to fix it up once I get more
:-)
- bruce
-Original Message-
From: Wiepert, Mathieu [mailto:[EMAIL PROTECTED]]
Sent: Monday, June 11, 2001 5:24 AM
To: '[EMAIL PROTECTED]'
Cc: [EMAIL PROTECTED]
Subject: RE: [Biojava-l] blast xml parser
You know, you are more than welcome to add any functionality you desire.
You hav
Hello everyone
I have been using the biojava package for around a month and today
surprisingly i have met with a strange circumstance of simple program not
able to compute the gc content from a file in the gene bank format.I would
be very glad if some body can tell me the bug in the program
Hello Everybody
Well The same is the problem with the files at the following urls
file name : BA17.gbk
ftp://ncbi.nlm.nih.gov/genbank/genomes/Bacteria/Staphylococcus_aureus_Mu50/
file name :NC_002745.gbk
ftp://ftp.ncbi.nlm.nih.gov/genomes/Bacteria/Staphylococcus_aureus/
both of
On Mon, Jun 11, 2001 at 06:32:08PM +0200, Sarath wrote:
> Hello everyone
> I have been using the biojava package for around a month and today
> surprisingly i have met with a strange circumstance of simple program not
> able to compute the gc content from a file in the gene bank format.I wou
hi thomas
It was so nice to hear from you the early response and it did work the
way you said but i just had to include a set of dummy characters to
mislead the program but is this the only way i could manage with
such files as the files i have suggested as a reference were the newly
sequenced
On Mon, Jun 11, 2001 at 08:17:55PM +0200, Sarath wrote:
> hi thomas
> It was so nice to hear from you the early response and it did work the
> way you said but i just had to include a set of dummy characters to
> mislead the program but is this the only way i could manage with
> such files as t
Here are a couple of links on the Genbank format:
ftp://ncbi.nlm.nih.gov/genbank/gbrel.txt
http://www.ncbi.nlm.nih.gov/Sitemap/samplerecord.html
Neither indicates that the GI field is optional. I checked Genbank through
the Web interface, and that version of AE000783 does have a GI field. On a
f
On 10 Jun 2001, Keith James wrote:
> In the demo you may notice features vanishing if entirely within 50
> pixels of the right edge of the SequencePanel. This seems to be due to
> arbitrary 50 pixel offset in SequencePanel interfering with the use of
> the rectangle returned by sequencePanel.getV
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