[Debian-med-packaging] Bug#684172: picard-tools: Transition package to default java implementation

[Olivier Sallou]

Le 8/8/12 9:02 AM, Andreas Tille a écrit :
> On Wed, Aug 08, 2012 at 03:17:18PM +0900, Charles Plessy wrote:
>>     [javac] location: package org.xerial.snappy
>>     [javac] import org.xerial.snappy.LoadSnappy;
>>     [javac]                         ^
> There is no such class in the JAR file nor does any grep reveal
> such a string like LoadSnappy.
>
>>     [javac] /«PKGBUILDDIR»/src/java/net/sf/samtools/util/SnappyLoader.java:83: cannot find symbol
>>     [javac] symbol  : variable LoadSnappy
>>     [javac] location: class net.sf.samtools.util.SnappyLoader
>>     [javac]             if (!LoadSnappy.load()) {
>>     [javac]                  ^
> For sure this must fail as well.
>
> I checked out the current upstream repository and this also does not get
> any hit for
>
>    grep -R LoadSnappy *
>
> You probably should contact picard-tools upstream what version of
> libsnappy they are using and whether they mind to upgrade to the latest
> upstream release.
>
> I'm not a Java expert but this seems to be pretty obvious - asking
> Olivier to backup my statement if you have some doubt might be
> reasonable.
We crossed our mails...   ;-)

LoadSnappy is available upstream
(http://code.google.com/p/snappy-java/source/browse/src/main/java/org/xerial/snappy/?r=727093ff48a59d893737c59c82f1cde078d57c7b),
but not in package.
Seems to be missing in tar.gz  and generated jar on upstream site,
though present in code trunk.


Olivier


> Kind regards
>
>      Andreas.
>

-- 
Olivier Sallou
IRISA / University of Rennes 1
Campus de Beaulieu, 35000 RENNES - FRANCE
Tel: 02.99.84.71.95

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