ERROR: Map file must have the same number of loci as hap file! Map file has 0 SNPs

[shreyashruti]

Hi.
I am trying to calculate EHH and IHs score from 1000 genomes data using hapbin.
And the error I am getting is "Map file must have the same number of loci as hap file! Map file has 0 SNPs".
Please help me fix the issue

@camaclean please look into it

Thanks in advance

[camaclean]

How are you making your map file? For the 1000 Genomes data, you can use tools/make_map.py to generate a .map file.

[shreyashruti]

@camaclean Thanks a ton for replying.
Where can I get tools/make_map.py from? I couldnt find it in hapbin/tools

[camaclean]

Woops, it looks like it was only in my fork.

Until it's merged, see #41.

[camaclean]

It's merged, now. You can run it as ./make_map.py --chromosome 22, for instance.