[Debian-med-packaging] Help to detect java classes in drop-seq (covid-19 relevant) needed

[Andreas Tille]

HI Felix,

On Wed, May 20, 2020 at 06:12:54PM +0200, Felix Natter wrote:
> 
> Since the upstream jars were in ${lib}, you need to point ${lib} to /usr/share/java/:
> 
> diff --git a/debian/patches/debian_packaged_libs.patch b/debian/patches/debian_packaged_libs.patch
> index 1d3790c..4fc1ed9 100644
> --- a/debian/patches/debian_packaged_libs.patch
> +++ b/debian/patches/debian_packaged_libs.patch
> @@ -1,6 +1,6 @@
>  --- a/build.xml
>  +++ b/build.xml
> -@@ -35,7 +35,7 @@
> +@@ -35,13 +35,15 @@
>       <property name="classes.test" location="testclasses"/>
>       <property name="test.output" location="dist/test"/>
>       <property name="javadoc" location="javadoc"/>
> @@ -9,3 +9,13 @@
>       <property name="public.dir" location="."/>
> 
>       <!-- INIT -->
> +     <path id="classpath">
> +-        <fileset dir="${lib}">
> +-            <include name="*.jar"/>
> ++        <fileset dir="/usr/share/java">
> ++            <include name="htsjdk.jar"/>
> ++            <include name="picard.jar"/>
> ++            <include name="commons-collections4.jar"/>
> +         </fileset>
> +     </path>
> +     <path id="test.classpath">
> 
> You have to add more libraries like these.

Thanks.  This was pretty helpful.  Now I need to package the
remaining JAR which is not yet packaged from

   http://la4j.org/

...

Kind regards

      Andreas.

-- 
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