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DReichLab / EIG

Eigen tools by Nick Patterson and Alkes Price lab
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zz1 lines in logfile and run taking a very long time #95

Open jaurbanChicago opened 1 year ago

jaurbanChicago commented 1 year ago

Hello,

I am running a PCA analysis with shrinkmode: YES and lsqproject: YES on 587,959 SNPs and 2175 individuals. I am using 11 threads. I have run very similar analyses before and they hadn't taken that long (24 hours and counting). In the logfile, I am seeing these lines (the eigensoft version I am using is 7.2.1):

zzzdebug  0:   -0.161994   0.043163
zzzdebug  1:   -0.159611   0.035017
zzzdebug  2:   -0.031974  -0.191544
zzzdebug  3:   -0.033887  -0.196764
zzzdebug  4:   -0.042047  -0.181856
zzzdebug  5:   -0.054901  -0.187658
zzzdebug  6:   -0.046974  -0.182714
zzzdebug  7:   -0.044402  -0.181061
zzzdebug  8:   -0.037263  -0.183389
zzzdebug  9:   -0.045420  -0.175278
zzzdebug  10:   -0.042557  -0.181060
zzzdebug  11:   -0.045696  -0.193568
zzzdebug  12:   -0.027339  -0.185624
zzzdebug  13:   -0.020572  -0.186052
zzzdebug  14:   -0.008639  -0.186824
zzzdebug  15:   -0.021820  -0.185716
zzzdebug  16:   -0.033784  -0.183953
zzzdebug  17:   -0.027204  -0.190936
zzzdebug  18:   -0.010060  -0.209168
zzzdebug  19:   -0.015066  -0.182851
zz1  -0.758864226  -0.000000000  -0.001032891
zz1  -0.036269180  -0.000000000  -0.001157912
zz1  -0.022072856  -0.000000000  -0.001761865
zz1  -0.019626287  -0.000000000  -0.002995257
zzcpr
a a::  587932.000
b b::  587932.000
a b::  587931.943
zz1  -0.012961584  -0.000000000  -0.002193965
zz1  -0.010338291  -0.000000000  -0.002085467
zz1  -0.021617004  -0.000000000  -0.001371760
zz1  -0.018710554  -0.000000000  -0.002045122
zz1  -0.017021903  -0.000000000  -0.001816108
zz1  -0.064094665  -0.000000000  -0.002209603
zz1  -0.014818947  -0.000000000  -0.000771681
zz1  -0.018768585  -0.000000000  -0.000457854
zz1  -0.021135464  -0.000000000  -0.000085845
zz1  -0.013379826  -0.000000000  -0.000495096
zz1  -0.016723464  -0.000000000  -0.001173733
zz1  -0.019100821  -0.000000000  -0.000798269
zz1  -0.021631670  -0.000000000  -0.000113226
zz1  -0.019475595  -0.000000000  -0.000242724
zz1  -0.021616726  -0.000000000  -0.000000026
zz1  -0.024447987  -0.000000000  -0.000820029
zz1  -0.019581563  -0.000000000  -0.000414247
zz1  -0.017907495  -0.000000000  -0.000119149
zz1  -0.023777544  -0.000000000  -0.000131644
zz1  -0.021188638  -0.000000000  -0.000370297
zz1  -0.016170737  -0.000000000  -0.000305984
zz1  -0.021119491  -0.000000000  -0.000552778
zz1  -0.023188987  -0.000000000  -0.000299535
zz1  -0.022210970  -0.000000000  -0.000614924

Do you know if this means there might be something wrong with the run? Thanks a lot in advance!