Hi again,
On Sat, Feb 08, 2014 at 09:11:15AM +0100, [email protected] wrote:
>
> > I gonna test this.
> I've gone furher, remove cplex, but there is still an issue. Code
> references:
>
> CigarParser.extractAllAlignDiffs()
>
>
> but there is no "import ...." in the code that would import CigarParser
> from a library or local code!
> and I cannot find on Internet any CigarParser class.
I tried to build in pbuilder and got:
Buildfile: /tmp/buildd/giira-0.0.20131015/build.xml
compile:
[mkdir] Created dir: /tmp/buildd/giira-0.0.20131015/build/classes
[mkdir] Created dir: /tmp/buildd/giira-0.0.20131015/dist
[javac] /tmp/buildd/giira-0.0.20131015/build.xml:35: warning:
'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to
false for repeatable builds
[javac] Compiling 25 source files to
/tmp/buildd/giira-0.0.20131015/build/classes
[javac] /tmp/buildd/giira-0.0.20131015/src/types/Rna.java:20: error:
unmappable character for encoding ASCII
[javac] public Vector<Object[]> contigsMappedOn = new
Vector<Object[]>(); // contains several Arrays ??: [contig, alignPos,
cigarString, mapQual,spliceInfo,mismatchInfo,direcInfo] (one for each hit)
[javac]
^
[javac] /tmp/buildd/giira-0.0.20131015/src/types/Rna.java:20: error:
unmappable character for encoding ASCII
[javac] public Vector<Object[]> contigsMappedOn = new
Vector<Object[]>(); // contains several Arrays ??: [contig, alignPos,
cigarString, mapQual,spliceInfo,mismatchInfo,direcInfo] (one for each hit)
[javac]
^
[javac] 2 errors
BUILD FAILED
/tmp/buildd/giira-0.0.20131015/build.xml:35: Compile failed; see the compiler
error output for details.
It seems this is not related to the missing class.
Any hint how to work around this?
Kind regards
Andreas.
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