What's kinds of warnings?
I guess "deprecation" warnings.
So, I think it may not be critical error.
Hiroyuki;
- Original Message -
From: "climb" <[EMAIL PROTECTED]>
To: <[EMAIL PROTECTED]>
Sent: Thursday, January 09, 2003 2:34 PM
Subject: [Biojava-l] (no sub
Hi,
If you only got warnings, everything should be OK.
What kind of warnings were they? What version of
biojava where you building (one of the releases, or
from CVS)? Did you build using ant? Did you get a new
biojava.jar at the end of it?
Java is never dangerous ;-)
Matthew
--- climb <[EMAIL
>What's kinds of warnings?
>I guess "deprecation" warnings.
>So, I think it may not be critical error.
>
Yes. but i found 122 warnings. Why not do some thing to kill them in the release? :-)
Yours
clim
On Thu, Jan 09, 2003 at 11:05:07PM +0800, climb wrote:
> >What's kinds of warnings?
> >I guess "deprecation" warnings.
> >So, I think it may not be critical error.
> >
> Yes. but i found 122 warnings. Why not do some thing to kill them in the release? :-)
Which version of BioJava are y
Problem solved, it looks like our company may have the port may be blocked
:-)
It works fine from home but not at work.
and cvs works fine from JBuilder7
Russell
> Message: 2
> From: "Russell Smithies" <[EMAIL PROTECTED]>
> To: [EMAIL PROTECTED], [EMAIL PROTECTED]
> Date: Wed, 08 Jan 2003 22:2
Problem solved, it looks like our company may have the port may be
blocked:-)
It works fine from home but not at work.
and cvs works fine from JBuilder7
Russell
> Message: 2
> From: "Russell Smithies" <[EMAIL PROTECTED]>
> To: [EMAIL PROTECTED], [EMAIL PROTECTED]
> Date: Wed, 08 Jan 2003 22:24
Hi,
Symbols in an alphabet is not sorted in any way. How do I sort them, for instance, by
name? Thanks.
Zhen
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The following code should do it,
You could actually make the ComparableSymbol wrapper implement Symbol
and pass all the Symbol methods directly to the wrapped Symbol. I may
even submit a ComparableSymbol as a class to biojava-live if people
think they would use it.
- Mark
import org.biojava.bio
A copy of the symbol set in an alphabet is sorted. What if I want to sort the
original symbol set in an alphabet? Thanks. -Zhen
-Original Message-
From: Schreiber, Mark [mailto:[EMAIL PROTECTED]]
Sent: Thursday, January 09, 2003 12:39 PM
To: Ren, Zhen; [EMAIL PROTECTED]
Subject: RE: [Bi
You may be able to reengineer the AlphabetIndexers so the index they
produce is based on the order of Symbols by name. Note that a Set is
never really sorted only its pointers are.
You could also make a wrapper wraps a FiniteAlphabet, implements
FiniteAlphabet, delegates all its methods to the wra
I am using DP and HMM. A distribution is an encapsulation of a probability
distribution over the Symbols within an alphabet. Set up emission probabilities like
this in a HMM object:
for(int i = 0; i < symbols.length; i++)
dist.setWeight(symbols[i], frequency[i]);
Later, a DP object is cre
Hi -
There was some talk a while back about adding some methods to allow the
protein alphabet to be reverse translated to a codon alphabet using one
of the translation tables.
Did anything come of this? Is the solution obvious and I'm just blind??
- Mark
Mark Schreiber PhD
Bioinformatics
AgRes
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