Upstream provides binary files without sources for:

* spliced_bam2gff/test_data/sirv_simulated.bam
* spliced_bam2gff/test_data/sirv_no_errors_gmap.bam
* spliced_bam2gff/test_data/sirv_errors_gmap.bam
* polish_clusters/test_data/sirv_e0_sorted.bam

These have been converted to corresponding text (.sam) files with the commands:
* samtools view -h -o <output>.sam <input>.bam

And the corresponding *.sam files are added to: debian/missing-sources

They can be generated back with the following commands:
* cat debian/missing-sources/sirv_e0_sorted.sam| samtools view -Sb - > polish_clusters/test_data/sirv_e0_sorted.bam
* cat debian/missing-sources/sirv_errors_gmap.sam| samtools view -Sb - > spliced_bam2gff/test_data/sirv_errors_gmap.bam
* cat debian/missing-sources/sirv_no_errors_gmap.sam| samtools view -Sb - > spliced_bam2gff/test_data/sirv_no_errors_gmap.bam
* cat debian/missing-sources/sirv_simulated.sam| samtools view -Sb - > spliced_bam2gff/test_data/sirv_simulated.bam


These commands are also being run in debian/rules since these binaries are needed for testing.

 -- Nilesh Patra <npatra974@gmail.com>  Wed, 16 Sep 2020 19:04:26 +0530

