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

[Andreas Tille]

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.

Kind regards

     Andreas.

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