Again, Inconsistent results with sambamba depth

[refaelkohen]

Hello,

I use with sambamba depth v0.5.7
There is problem with the results of sambamba depth:
When I use with part of bed file (of regions) I get different results from the case that I use with all bed file.

I upload the input and output files to our server (49G):
You can downlaod the files with the command:
wget -r --no-parent http://incpm-2.weizmann.ac.il/bioinfo/sambamba/

I use with the commands:
For bed file with all regions:
sambamba depth region -t 40 -L in_part.bed ERR224450.1.bam > out_part &
For bed file with part of regions:
sambamba depth region -t 40 -L in_all.bed ERR224450.1.bam > out_all &

Thank you,
Refael.

[lomereiter]

Thanks for providing me with the full test case. Unfortunately, I haven't properly tested the fix to #147, my changes turned out to be incomplete.

(Also, could you please in the future reopen old issues instead of creating new ones?)

[refaelkohen]

This is works fine now.
Thank you on your very fast software and very fast response :)
Refael.