Running OutFLANK with haploid data

[krostifangers]

Hi Katie and Mike
I am trying to use OutFLANK on my haploid dataset of about 8000 SNP on 4 populations. So I am about to use the WC_FST_FiniteSample_Haploids_2AllelesB_NoSamplingCorrection(AllCounts) but it is not clear to me how Allcounts should be presented.

Say I have 5 loci and 2 populations of 30 individuals each, is Allcounts looking like this ?

(pop1)10 20
(pop2) 15 15
(pop1)15 15
(pop2) 5 25
(pop1)18 12
(pop2) 20 10
(pop1)30 0
(pop2) 25 5
(pop1)10 20
(pop2)15 15
or like this?
(pop1) 10 20 15 15 18 12 30 0 10 20
(pop2) 15 15 5 25 20 10 25 5 15 15

Thank you in advance
Christophe