[Debian-med-packaging] Bug#844034: pbhoney: incompatible with blasr 5.x

[Afif Elghraoui]

Package: pbhoney
Version: 15.8.24+dfsg-1
Severity: serious
Control: forwarded -1 https://sourceforge.net/p/pb-jelly/tickets/5/

As blasr has been updated to 5.x in Unstable/Testing, pbhoney no longer works
due to the interface change there. blasr options in 5.x have been changed from
single dashes to double dashes.

pbhoney test log [1]:
~~~
2016-11-11 21:16:47,957 [INFO] Running /usr/bin/Honey pie filtered_subreads.fastq lambda_modified.fasta -o mappingFinal.sam
2016-11-11 21:16:47,957 [INFO] Running Blasr
2016-11-11 21:16:47,965 [ERROR] blasr mapping failed!
2016-11-11 21:16:47,965 [ERROR] RETCODE 1
2016-11-11 21:16:47,965 [ERROR] STDOUT    Options for blasr 
   Basic usage: 'blasr reads.{bam|fasta|bax.h5|fofn} genome.fasta [-options] 
 option	Description (default_value).
~~~

1.https://ci.debian.net/data/packages/unstable/amd64/p/pbsuite/20161111_211518.autopkgtest.log.gz