@----------------------------------------------------------@
|        PLINK!       |     v1.07      |   10/Aug/2009     |
|----------------------------------------------------------|
|  (C) 2009 Shaun Purcell, GNU General Public License, v2  |
|----------------------------------------------------------|
|  For documentation, citation & bug-report instructions:  |
|        http://pngu.mgh.harvard.edu/purcell/plink/        |
@----------------------------------------------------------@

Skipping web check... [ --noweb ] 
Writing this text to log file [ plinkP23.log ]
Analysis started: Wed Feb 13 01:51:50 2013

Options in effect:
	--bfile dataSim50plinkpruned
	--noweb
	--read-genome plinkP23.genome
	--segment
	--all-pairs
	--segment-length 0.1
	--segment-snp 20
	--out plinkP23

Reading map (extended format) from [ dataSim50plinkpruned.bim ] 
6450 markers to be included from [ dataSim50plinkpruned.bim ]
Reading pedigree information from [ dataSim50plinkpruned.fam ] 
1000 individuals read from [ dataSim50plinkpruned.fam ] 
0 individuals with nonmissing phenotypes
Assuming a disease phenotype (1=unaff, 2=aff, 0=miss)
Missing phenotype value is also -9
0 cases, 0 controls and 1000 missing
0 males, 0 females, and 1000 of unspecified sex
Warning, found 1000 individuals with ambiguous sex codes
These individuals will be set to missing ( or use --allow-no-sex )
Writing list of these individuals to [ plinkP23.nosex ]
Reading genotype bitfile from [ dataSim50plinkpruned.bed ] 
Detected that binary PED file is v1.00 SNP-major mode
Before frequency and genotyping pruning, there are 6450 SNPs
1000 founders and 0 non-founders found
Total genotyping rate in remaining individuals is 1
0 SNPs failed missingness test ( GENO > 1 )
0 SNPs failed frequency test ( MAF < 0 )
After frequency and genotyping pruning, there are 6450 SNPs
After filtering, 0 cases, 0 controls and 1000 missing
After filtering, 0 males, 0 females, and 1000 of unspecified sex

 **Warning** this analysis typically requires whole-genome level data
             to give accurate results 

Converting data to Individual-major format
Reading genome-wide IBD estimates from [ plinkP23.genome ] 

499018 pairs are informative  ( 0.0025 <= pihat <= 1 )
Using multipoint analysis: step = 2 and fringe = 0.01 cM

Scanning from autosomes from chromosome 1 to 1

Writing IBD-segment information to [ plinkP23.segment ]
Writing IBD-segment summary to [ plinkP23.segment.summary ]

Minimum segment length is 0 kb and 20 SNPs
Segment thresholds are 0.25 and 0.25
Maximum intra-segment inter-SNP distance is 1000
Scan region on chromosome 1 from [ 1 ] to [ 9999 ]
6450 markers in this scan
Multipoint map has 12903 positions
1000 unique, informative individuals in analysis

Analysis finished: Wed Feb 13 03:59:49 2013