@----------------------------------------------------------@
|        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 [ /data/Pernilla/Mendel.log ]
Analysis started: Tue Sep 25 16:32:24 2012

Options in effect:
	--ped /data/Pernilla/Pernilla_new_ped.txt
	--map /data/Pernilla/map_w_X.txt
	--noweb
	--no-pheno
	--compound-genotypes
	--map3
	--missing-genotype N
	--out /data/Pernilla/Mendel
	--mendel

265551 (of 265551) markers to be included from [ /data/Pernilla/map_w_X.txt ]
867 individuals read from [ /data/Pernilla/Pernilla_new_ped.txt ] 
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 867 missing
466 males, 401 females, and 0 of unspecified sex
Before frequency and genotyping pruning, there are 265551 SNPs
Converting data to SNP-major format
192 founders and 675 non-founders found
1158 heterozygous haploid genotypes; set to missing
Writing list of heterozygous haploid genotypes to [ /data/Pernilla/Mendel.hh ]
Total genotyping rate in remaining individuals is 0.998723
0 SNPs failed missingness test ( GENO > 1 )
0 SNPs failed frequency test ( MAF < 0 )
Converting data to Individual-major format
After frequency and genotyping pruning, there are 265551 SNPs
After filtering, 0 cases, 0 controls and 867 missing
After filtering, 466 males, 401 females, and 0 of unspecified sex
96 nuclear families, 0 founder singletons found
675 non-founders with 2 parents in 96 nuclear families
0 non-founders without 2 parents in 0 nuclear families
0 affected offspring trios
0 phenotypically discordant parent pairs found
Writing all Mendel errors to [ /data/Pernilla/Mendel.mendel ]
Writing per-offspring Mendel summary to [ /data/Pernilla/Mendel.imendel ]
Writing per-family Mendel summary to [ /data/Pernilla/Mendel.fmendel ]
Writing per-locus Mendel summary to [ /data/Pernilla/Mendel.lmendel ]
1116237 Mendel errors detected in total

Analysis finished: Tue Sep 25 16:34:36 2012