On Mon, Jun 04, 2001 at 08:49:30PM +0100, Dr S.M. Huen wrote:
> >From what I can discern from the specs and the sources, the component and
> the sequence onto which it is mapped must be collinear (ie. same size
> and sense). Have I understood that correctly?
The requirements are that both locati
On Tue, 5 Jun 2001, Thomas Down wrote:
> On Mon, Jun 04, 2001 at 08:49:30PM +0100, Dr S.M. Huen wrote:
> > >From what I can discern from the specs and the sources, the component and
> > the sequence onto which it is mapped must be collinear (ie. same size
> > and sense). Have I understood that c
On Tue, Jun 05, 2001 at 01:12:14PM +0100, Dr S.M. Huen wrote:
> Yes it is.
>
> But the reason I gained the impression that strand wasn't supported was
> from this part of AssembledSymbolList.java:-
>
> public Symbol symbolAt(int pos) {
> Location l = locationOfPoint(pos);
> if (l
Seems to me that most people working on non-unix platforms use IDEs. I haven't seen anyone writing java code with notepad (or other text editors), and then run javac from the command line... I myself have been converted from being an Emacs enthusiast to preaching the gospel of IDEs - it's a matter
Arnon Klein wrote:
> Seems to me that most people working on non-unix platforms use IDEs.
> I haven't seen anyone writing java code with notepad (or other text
> editors), and then run javac from the command line... I myself have
> been converted from being an Emacs enthusiast to preaching the g
Ah... I'm the guy who uses javac on a windows box. Switching to 1.4 is no
problem for me. However, looking at the thread, I suggest tabling this
until a Mac version is released, since a number of people require that.
Greg
-Original Message-
From: Arnon Klein [mailto:[EMAIL PROTECTED]
I already wish I kept my trap shut...
It's ok to use Emacs. (Hey - there are people who still use ed ("The standard text editor"));
It's ok to know all of javac's command-line options.
It's fine to browse classes with javap.
If you're used to an IDE and need one that works (fairly well) with JDK1.
On Tue, Jun 05, 2001 at 06:18:51AM -0700, Arnon Klein wrote:
>
> And yes - switching to JDK1.4 at this time will be a mistake. JDK1.4 is at present -
>"write once, debug on Solaris/Windows only."
> Seems to me that alot of people who also use linux boxes, or Irix (I know at least
>one...) No JD
Any thought to forking a branch with 1.4, anyone interested in that?
Merging when all the platforms support it? Would that be useful?
-Mat
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I don't see any significant benefit in 1.4 enhancements that would warrant
that. What sorts of things would be done on a branch?
Mike
> -Original Message-
> From: Wiepert, Mathieu [mailto:[EMAIL PROTECTED]]
> Sent: Tuesday, June 05, 2001 11:00 AM
> Cc: [EMAIL PROTECTED]
> Subject: RE: [
While we are on the subject of JDK1.4, it looks like an implementation of the
logging API is going to available separately from JDK 1.4:- 'Lumberjack' is
an implementation of the Java logging API (introduced in JDK 1.4) for JDK
versions 1.2 and 1.3.
See http://sourceforge.net/projects/javaloggi
Hello folks,
We are not using the biojava API, but we are starting to use Java1.2 for some of
our applications. I have written a filtering/parsing app for Genbank and EMBL
formatted sequence records. As you know some of the files I am parsing are
large.
My problem is writing to a file using
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The docs for the BlastLikeSAXParser specify that NCBI Blast version 2.0.11
is the only one that's supported. The current version is 2.1.3; is anyone
upgrading the parser, or have some feel for how difficult this would be?
Greg
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It would be very easy to do, I haven't done that yet. Which reminds me, I
have some other code I better put soon. All that needs to be done is to add
a few if checks to 2 or 3 modules. Then see if it breaks. If it doesn't
then the format didn't change. Anyone know if the format changed?
-Mat
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