[Biojava-l] Problems in compiling biojava-live

[Matthew Pocock]

Hi Sylvain,

You could try:

cvs update -Pd

This will attempt to pull in any new directories and
prune out any empty directories. If that doesn't fix
the problem, get back in touch. I tend to habitually
use this rather than the plain "cvs update" just in
case.

Matthew

 --- Sylvain.Foisy@pw600a.bioperl.org, "Ph. D."
<foisys@sympatico.ca> wrote: > Hi,
> 
> I have some difficulties compiling biojava-live for
> the past couples of 
> days, both on my Linux WS at work and my PowerMac G4
> at home. On both 
> machines, ant gives me the same warnings:
> 
> [javac] /Users/foisys/biojava-live/ant-
>
build/src/main/org/biojava/bio/seq/io/GAMEFormat.java:37:
> package 
> org.biojava.bio.seq.io.game12 does not exist
>      [javac] import org.biojava.bio.seq.io.game12.*;
>      [javac] ^
>      [javac] /Users/foisys/biojava-live/ant-
>
build/src/main/org/biojava/bio/seq/io/GAMEFormat.java:73:
> cannot resolve 
> symbol
>      [javac] symbol  : class GAMEHandler
>      [javac] location: class
> org.biojava.bio.seq.io.GAMEFormat
>      [javac]             GAMEHandler handler = new
> GAMEHandler(listener);
>      [javac]             ^
>      [javac] /Users/foisys/biojava-live/ant-
>
build/src/main/org/biojava/bio/seq/io/GAMEFormat.java:73:
> cannot resolve 
> symbol
>      [javac] symbol  : class GAMEHandler
>      [javac] location: class
> org.biojava.bio.seq.io.GAMEFormat
>      [javac]             GAMEHandler handler = new
> GAMEHandler(listener);
>      [javac]                                       ^
>      [javac] /Users/foisys/biojava-live/ant-
>
build/src/main/org/biojava/bio/seq/projection/ProjectionEngine.java:239:
> 
> make_return() in org.biojava.utils.bytecode.ByteCode
> cannot be applied 
> to (org.biojava.utils.bytecode.GeneratedCodeMethod)
>      [javac]                 Instruction returni = 
> ByteCode.make_return(proxyMethod);
>      [javac]                                        
>           ^
>      [javac] Note: Some input files use or override
> a deprecated API.
>      [javac] Note: Recompile with -deprecation for
> details.
>      [javac] 4 errors
> 
> BUILD FAILED
> 
> Anybody has a clue about this?
> 
> Cordially
> 
> Sylvain
> 
>
++++++++++++++++++++++++++++++++++++++++++++++++++++++++
> Sylvain Foisy, Ph. D.
> Directeur-Operations / Project Manager
> BioNEQ - Le Reseau quebecois de bioinformatique
> Universite de Montreal/Genome-Quebec
> 1260 Crescent, Bureau 201
> Montreal, QC
> Tel.: (514) 878-9911
> E-mail: sylvain.foisy@bioneq.qc.ca
>
++++++++++++++++++++++++++++++++++++++++++++++++++++++++
> 
> _______________________________________________
> Biojava-l mailing list  -  Biojava-l@biojava.org
> http://biojava.org/mailman/listinfo/biojava-l 

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