[Debian-med-packaging] Bug#895765: IGV

[Andreas Tille]

Hi Olivier,

On Thu, Oct 18, 2018 at 06:18:58PM +0200, Olivier Sallou wrote:
> 
> testing with your removals, you only need to add to build gradle file
> the ref to htsjdk

I've now pushed the freshly stripped upstream version since we
both agree that a competing htsjdk is not a good idea.
 
> I pushed the update on patch (but your copyright patch is not yet there)
> 
> With this compile "com.github.samtools:htsjdk:debian" and htsjdk jar
> removed from upstream source, it compiles fine for me.

I confirm it compiles fine now.  However:


$ LC_ALL=C igv
Error: Unable to initialize main class org.broad.igv.ui.Main
Caused by: java.lang.NoClassDefFoundError: htsjdk/samtools/seekablestream/ISeekableStreamFactory


Sorry to admit that we seem to need another iteration to get igv out.
 
Thanks a lot for your effort

      Andreas.

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