[Debian-med-packaging] Asking help for the picard-tools package

[Vincent Danjean]

On 08/09/2015 02:02, Vincent Danjean wrote:
>   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.

  In fact, the bug comes from the main program, at runtime:
vdanjean at atsina:~/picard-tools$ CLASSPATH=/usr/share/java/htsjdk.jar:/usr/share/java/guava.jar:dist/picard.jar java picard.cmdline.PicardCommandLine FilterVcf -h
USAGE: FilterVcf [options]
[... help text ...]
vdanjean at atsina:~/picard-tools$ cd ..
vdanjean at atsina:~$ mv picard-tools picard-tools+1
vdanjean at atsina:~$ cd picard-tools+1/
vdanjean at atsina:~/picard-tools+1$ CLASSPATH=/usr/share/java/htsjdk.jar:/usr/share/java/guava.jar:dist/picard.jar java picard.cmdline.PicardCommandLine FilterVcf -h
WARNING	2015-09-08 07:36:07	ClassFinder	could not read entriesjava.io.FileNotFoundException: /home/vdanjean/picard-tools 1/dist/picard.jar (No such file or directory)
USAGE: PicardCommandLine <program name> [-h]

Available Programs:
--------------------------------------------------------------------------------------

'FilterVcf' is not a valid command. See PicardCommandLine --help for more information.
vdanjean at atsina:~/picard-tools+1$

  :-(
  I will try to contact upstream.

  Regards,
    Vincent

-- 
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