Java question: How to query picard-tools for --version

[Andreas Tille <andreas@an3as.eu>]

Hi,

I'm struggling to package metaBIT[1] and I'm currently stumbling upon
the fact that it is querying picard-tools for its version number.  While
I could proably simply skip this test and make sure via dependencies
that this is fullfilled I'd like to understand the issue myself.

When grepping picard-tools source there is a definition of --version
option:

/picard-tools(master) $ grep -R -- "-version" | grep ^src
src/main/resources/release_picard.sh:# java_version=`java -version 2>&1 | fgrep -i version`
src/main/java/picard/cmdline/CommandLineParser.java:            {"--version", null, "Displays program version."}
src/main/java/picard/cmdline/CommandLineParser.java:            if (arg.equals("--version")) {


When trying

   /usr/bin/PicardCommandLine --version

I get

...
'--version' is not a valid command. See PicardCommandLine --help for more information.


Funny enough also

   /usr/bin/PicardCommandLine --help

ends up in

...
'--help' is not a valid command. See PicardCommandLine --help for more information.


When calling the command inside PicardCommandLine manually and add the specific
class that contains the --version option


   java -XX:MaxPermSize=256m -jar /usr/share/java/picard.jar picard.cmdline.CommandLineParser --version

I get

...
'picard.cmdline.CommandLineParser' is not a valid command. See PicardCommandLine --help for more information.


I also tried

   ava  -classpath /usr/share/java/picard.jar main=picard.cmdline.CommandLineParser --version
Error: Could not find or load main class main=picard.cmdline.CommandLineParser


So how can I successfully query for the picard-tools version.

Kind regards

       Andreas.


[1] https://anonscm.debian.org/git/debian-med/metabit.git

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