Groups > linux.debian.maint.java > #8333

Asking help for the picard-tools package

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From	Vincent Danjean <vdanjean.ml@free.fr>
Newsgroups	linux.debian.maint.java
Subject	Asking help for the picard-tools package
Date	Tue, 08 Sep 2015 02:10:02 +0200
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  Hi,

  After the htsjdk package, I tried to update the picard-tools
package itself.

  Sources can be obtained with
git clone git://anonscm.debian.org/debian-med/picard-tools.git

  Of course, to compile it, you need the previous libhtsjdk-java
package. You can find a compiled version in my own repo (see
my signature for the APT repo or manually download it from
https://people.debian.org/~vdanjean/debian/pool/main/libh/libhtsjdk-java/ )

  I'm annoyed with the current package: the tests fail when the
sources are in a directory containing a '+'. And, due to the repack
and the +dfsg suffix, my sbuilder put the source into a
«BUILDDIR»/picard-tools-1.138+dfsg.1 directory.

  I manually reproduce the problem:
"dpkg-buildpackage -us -uc" works perfectly when invoked from
a 'picard-tools' directory, but fails during the tests if I rename
the directory into 'picard-tools-1.138+dfsg.1'.
  In the log, we can found:
[testng] WARNING 2015-09-07 23:25:58     ClassFinder     could not read entriesjava.io.FileNotFoundException: /home/vdanjean/«BUILDDIR»/picard-tools-1.138 dfsg.1/classes/picard (No such file or directory)

The '+' as been replaced by a ' '

  Is this a known issue with java tools? Is there a workaround?
Google did not show me anything relevant.

  Regards,
    Vincent

-- 
Vincent Danjean       GPG key ID 0xD17897FA         vdanjean@debian.org
GPG key fingerprint: 621E 3509 654D D77C 43F5  CA4A F6AE F2AF D178 97FA
Unofficial pkgs: http://moais.imag.fr/membres/vincent.danjean/deb.html
APT repo:  deb http://people.debian.org/~vdanjean/debian unstable main

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Asking help for the picard-tools package Vincent Danjean <vdanjean.ml@free.fr> - 2015-09-08 02:10 +0200
  Re: Asking help for the picard-tools package Vincent Danjean <vdanjean.ml@free.fr> - 2015-09-08 09:40 +0200
    Asking review for the picard-tools package Vincent Danjean <vdanjean.ml@free.fr> - 2015-09-08 11:50 +0200

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