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  1. /home/ubuntu/AdmixTools-master/bin/qpAdm: parameter file: qpAdm_parfile
  2. ### THE INPUT PARAMETERS
  3. ##PARAMETER NAME: VALUE
  4. indivname: /home/ubuntu/MainSet/robertDataset2.ind
  5. snpname: /home/ubuntu/MainSet/robertDataset.snp
  6. genotypename: /home/ubuntu/MainSet/robertDataset.packedancestrymapgeno
  7. popleft: /home/ubuntu/pLeft.tx
  8. popright: /home//ubuntu/pRightB
  9. allsnps: YES
  10. ## qpAdm version: 1201
  11. seed: 148668224
  12. read 1073741824 bytes
  13. read 2147483648 bytes
  14. read 3213231878 bytes
  15. packed geno read OK
  16. end of inpack
  17.  
  18. left pops:
  19. Tajikistan_C_Sarazm
  20. Iran_GanjDareh_N
  21. Kazakhstan_Dali_EBA
  22. Turkey_TellKurdu_EC
  23.  
  24. right pops:
  25. Ethiopia_4500BP
  26. Morocco_Iberomaurusian
  27. Anzick
  28. Kostenki14
  29. Vestonice
  30. MA1
  31. Tianyuan
  32. DevilsCave_N
  33. Russia_EHG
  34. Loschbour
  35. Jordan_Late_PPNB
  36. Turkey_TepecikCiftlik_N.SG
  37. WSHG1
  38. Satsurblia_HG
  39. Pinarbasi
  40. Andaman_100BP
  41.  
  42. 0 Tajikistan_C_Sarazm 2
  43. 1 Iran_GanjDareh_N 8
  44. 2 Kazakhstan_Dali_EBA 1
  45. 3 Turkey_TellKurdu_EC 5
  46. 4 Ethiopia_4500BP 1
  47. 5 Morocco_Iberomaurusian 6
  48. 6 Anzick 1
  49. 7 Kostenki14 1
  50. 8 Vestonice 4
  51. 9 MA1 1
  52. 10 Tianyuan 1
  53. 11 DevilsCave_N 5
  54. 12 Russia_EHG 1
  55. 13 Loschbour 1
  56. 14 Jordan_Late_PPNB 1
  57. 15 Turkey_TepecikCiftlik_N.SG 3
  58. 16 WSHG1 1
  59. 17 Satsurblia_HG 1
  60. 18 Pinarbasi 1
  61. 19 Andaman_100BP 1
  62. jackknife block size: 0.050
  63. snps: 1150445 indivs: 46
  64. number of blocks for block jackknife: 714
  65. ## ncols: 1150445
  66. coverage: Tajikistan_C_Sarazm 867960
  67. coverage: Iran_GanjDareh_N 1057358
  68. coverage: Kazakhstan_Dali_EBA 774708
  69. coverage: Turkey_TellKurdu_EC 641173
  70. coverage: Ethiopia_4500BP 1149598
  71. coverage: Morocco_Iberomaurusian 1101342
  72. coverage: Anzick 1139074
  73. coverage: Kostenki14 1048972
  74. coverage: Vestonice 762847
  75. coverage: MA1 805960
  76. coverage: Tianyuan 885079
  77. coverage: DevilsCave_N 1149739
  78. coverage: Russia_EHG 532960
  79. coverage: Loschbour 1062011
  80. coverage: Jordan_Late_PPNB 440642
  81. coverage: Turkey_TepecikCiftlik_N.SG 794097
  82. coverage: WSHG1 805417
  83. coverage: Satsurblia_HG 801311
  84. coverage: Pinarbasi 848431
  85. coverage: Andaman_100BP 1133184
  86. Effective number of blocks: 618.532
  87. numsnps used: 1150445
  88. codimension 1
  89. f4info:
  90. f4rank: 2 dof: 13 chisq: 16.621 tail: 0.217210976 dofdiff: 15 chisqdiff: -16.621 taildiff: 1
  91. B:
  92. scale 1.000 1.000
  93. Morocco_Iberomaurusian -0.060 1.117
  94. Anzick 1.486 -0.126
  95. Kostenki14 0.362 0.439
  96. Vestonice 0.455 0.873
  97. MA1 1.558 -0.055
  98. Tianyuan 0.661 -0.169
  99. DevilsCave_N 0.843 -0.121
  100. Russia_EHG 1.424 0.313
  101. Loschbour 0.430 1.110
  102. Jordan_Late_PPNB -0.529 1.925
  103. Turkey_TepecikCiftlik_N.SG -0.519 1.729
  104. WSHG1 2.369 -0.327
  105. Satsurblia_HG -0.001 -0.406
  106. Pinarbasi -0.458 2.107
  107. Andaman_100BP 0.540 0.002
  108. A:
  109. scale 408.211 769.835
  110. Iran_GanjDareh_N -0.723 -0.625
  111. Kazakhstan_Dali_EBA 1.462 0.608
  112. Turkey_TellKurdu_EC -0.582 1.497
  113.  
  114.  
  115. full rank
  116. f4info:
  117. f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 13 chisqdiff: 16.621 taildiff: 0.217210976
  118. B:
  119. scale 521.286 283.792 382.436
  120. Morocco_Iberomaurusian -0.519 0.151 0.828
  121. Anzick -1.455 1.436 -0.946
  122. Kostenki14 -0.623 0.449 0.095
  123. Vestonice -0.894 0.620 0.361
  124. MA1 -1.524 1.545 -0.924
  125. Tianyuan -0.226 0.819 -0.321
  126. DevilsCave_N -0.607 0.928 -0.478
  127. Russia_EHG -1.508 1.504 -0.570
  128. Loschbour -1.040 0.628 0.525
  129. Jordan_Late_PPNB -0.339 -0.097 1.724
  130. Turkey_TepecikCiftlik_N.SG -0.427 -0.227 1.518
  131. WSHG1 -2.135 2.311 -1.573
  132. Satsurblia_HG -0.127 -0.211 -0.400
  133. Pinarbasi -0.373 0.076 1.870
  134. Andaman_100BP -0.562 0.546 -0.288
  135. A:
  136. scale 1.732 1.732 1.732
  137. Iran_GanjDareh_N 1.732 0.000 0.000
  138. Kazakhstan_Dali_EBA 0.000 1.732 0.000
  139. Turkey_TellKurdu_EC 0.000 0.000 1.732
  140.  
  141.  
  142. best coefficients: 0.570 0.324 0.106
  143. Jackknife mean: 0.569329011 0.324113939 0.106557050
  144. std. errors: 0.044 0.023 0.031
  145.  
  146. error covariance (* 1,000,000)
  147. 1926 -744 -1182
  148. -744 540 203
  149. -1182 203 979
  150.  
  151.  
  152. summ: Tajikistan_C_Sarazm 3 0.217211 0.569 0.324 0.107 1926 -744 -1182 540 203 ...
  153. 979
  154.  
  155. fixed pat wt dof chisq tail prob
  156. 000 0 13 16.621 0.217211 0.570 0.324 0.106
  157. 001 1 14 29.076 0.0102052 0.698 0.302 0.000
  158. 010 1 14 164.569 8.53658e-28 1.107 0.000 -0.107 infeasible
  159. 100 1 14 163.202 1.60949e-27 0.000 0.555 0.445
  160. 011 2 15 169.612 2.92418e-28 1.000 0.000 0.000
  161. 101 2 15 486.587 0 0.000 1.000 0.000
  162. 110 2 15 974.626 0 0.000 0.000 1.000
  163. best pat: 000 0.217211 - -
  164. best pat: 100 1.60949e-27 chi(nested): 146.581 p-value for nested model: 9.69007e-34
  165. best pat: 011 2.92418e-28 not nested
  166.  
  167. coeffs: 0.570 0.324 0.106
  168.  
  169. ## dscore:: f_4(Base, Fit, Rbase, right2)
  170. ## genstat:: f_4(Base, Fit, right1, right2)
  171.  
  172. details: Iran_GanjDareh_N Morocco_Iberomaurusian -0.000996 -3.258033
  173. details: Kazakhstan_Dali_EBA Morocco_Iberomaurusian 0.000533 1.511946
  174. details: Turkey_TellKurdu_EC Morocco_Iberomaurusian 0.002166 7.573937
  175. dscore: Morocco_Iberomaurusian f4: -0.000165 Z: -0.626122
  176.  
  177. details: Iran_GanjDareh_N Anzick -0.002791 -6.898189
  178. details: Kazakhstan_Dali_EBA Anzick 0.005061 10.489412
  179. details: Turkey_TellKurdu_EC Anzick -0.002475 -7.104207
  180. dscore: Anzick f4: -0.000213 Z: -0.599068
  181.  
  182. details: Iran_GanjDareh_N Kostenki14 -0.001195 -3.256326
  183. details: Kazakhstan_Dali_EBA Kostenki14 0.001583 3.570150
  184. details: Turkey_TellKurdu_EC Kostenki14 0.000249 0.760422
  185. dscore: Kostenki14 f4: -0.000141 Z: -0.441359
  186.  
  187. details: Iran_GanjDareh_N Vestonice -0.001715 -4.762600
  188. details: Kazakhstan_Dali_EBA Vestonice 0.002186 4.732374
  189. details: Turkey_TellKurdu_EC Vestonice 0.000945 2.579618
  190. dscore: Vestonice f4: -0.000168 Z: -0.519473
  191.  
  192. details: Iran_GanjDareh_N MA1 -0.002924 -7.600493
  193. details: Kazakhstan_Dali_EBA MA1 0.005444 11.661626
  194. details: Turkey_TellKurdu_EC MA1 -0.002415 -7.218946
  195. dscore: MA1 f4: -0.000158 Z: -0.467721
  196.  
  197. details: Iran_GanjDareh_N Tianyuan -0.000433 -1.080279
  198. details: Kazakhstan_Dali_EBA Tianyuan 0.002885 6.142580
  199. details: Turkey_TellKurdu_EC Tianyuan -0.000840 -2.179047
  200. dscore: Tianyuan f4: 0.000599 Z: 1.684917
  201.  
  202. details: Iran_GanjDareh_N DevilsCave_N -0.001164 -3.267314
  203. details: Kazakhstan_Dali_EBA DevilsCave_N 0.003270 7.551365
  204. details: Turkey_TellKurdu_EC DevilsCave_N -0.001251 -3.891540
  205. dscore: DevilsCave_N f4: 0.000264 Z: 0.828785
  206.  
  207. details: Iran_GanjDareh_N Russia_EHG -0.002893 -7.876753
  208. details: Kazakhstan_Dali_EBA Russia_EHG 0.005301 10.532126
  209. details: Turkey_TellKurdu_EC Russia_EHG -0.001491 -3.977816
  210. dscore: Russia_EHG f4: -0.000089 Z: -0.256215
  211.  
  212. details: Iran_GanjDareh_N Loschbour -0.001995 -5.190037
  213. details: Kazakhstan_Dali_EBA Loschbour 0.002214 4.805500
  214. details: Turkey_TellKurdu_EC Loschbour 0.001373 3.883066
  215. dscore: Loschbour f4: -0.000273 Z: -0.813387
  216.  
  217. details: Iran_GanjDareh_N Jordan_Late_PPNB -0.000650 -2.065788
  218. details: Kazakhstan_Dali_EBA Jordan_Late_PPNB -0.000343 -0.843403
  219. details: Turkey_TellKurdu_EC Jordan_Late_PPNB 0.004509 12.414663
  220. dscore: Jordan_Late_PPNB f4: -0.000003 Z: -0.008825
  221.  
  222. details: Iran_GanjDareh_N Turkey_TepecikCiftlik_N.SG -0.000819 -2.673432
  223. details: Kazakhstan_Dali_EBA Turkey_TepecikCiftlik_N.SG -0.000800 -2.194215
  224. details: Turkey_TellKurdu_EC Turkey_TepecikCiftlik_N.SG 0.003969 13.033331
  225. dscore: Turkey_TepecikCiftlik_N.SG f4: -0.000304 Z: -1.131693
  226.  
  227. details: Iran_GanjDareh_N WSHG1 -0.004096 -9.662252
  228. details: Kazakhstan_Dali_EBA WSHG1 0.008144 14.338035
  229. details: Turkey_TellKurdu_EC WSHG1 -0.004114 -10.114093
  230. dscore: WSHG1 f4: -0.000131 Z: -0.337555
  231.  
  232. details: Iran_GanjDareh_N Satsurblia_HG -0.000243 -0.662586
  233. details: Kazakhstan_Dali_EBA Satsurblia_HG -0.000743 -1.820580
  234. details: Turkey_TellKurdu_EC Satsurblia_HG -0.001047 -3.318599
  235. dscore: Satsurblia_HG f4: -0.000490 Z: -1.578834
  236.  
  237. details: Iran_GanjDareh_N Pinarbasi -0.000716 -1.855140
  238. details: Kazakhstan_Dali_EBA Pinarbasi 0.000267 0.559971
  239. details: Turkey_TellKurdu_EC Pinarbasi 0.004890 13.029385
  240. dscore: Pinarbasi f4: 0.000198 Z: 0.570045
  241.  
  242. details: Iran_GanjDareh_N Andaman_100BP -0.001077 -2.779279
  243. details: Kazakhstan_Dali_EBA Andaman_100BP 0.001923 4.530647
  244. details: Turkey_TellKurdu_EC Andaman_100BP -0.000753 -2.228499
  245. dscore: Andaman_100BP f4: -0.000070 Z: -0.214492
  246.  
  247. gendstat: Ethiopia_4500BP Morocco_Iberomaurusian -0.626
  248. gendstat: Ethiopia_4500BP Anzick -0.599
  249. gendstat: Ethiopia_4500BP Kostenki14 -0.441
  250. gendstat: Ethiopia_4500BP Vestonice -0.519
  251. gendstat: Ethiopia_4500BP MA1 -0.468
  252. gendstat: Ethiopia_4500BP Tianyuan 1.685
  253. gendstat: Ethiopia_4500BP DevilsCave_N 0.829
  254. gendstat: Ethiopia_4500BP Russia_EHG -0.256
  255. gendstat: Ethiopia_4500BP Loschbour -0.813
  256. gendstat: Ethiopia_4500BP Jordan_Late_PPNB -0.009
  257. gendstat: Ethiopia_4500BP Turkey_TepecikCiftlik_N.SG -1.132
  258. gendstat: Ethiopia_4500BP WSHG1 -0.338
  259. gendstat: Ethiopia_4500BP Satsurblia_HG -1.579
  260. gendstat: Ethiopia_4500BP Pinarbasi 0.570
  261. gendstat: Ethiopia_4500BP Andaman_100BP -0.214
  262. gendstat: Morocco_Iberomaurusian Anzick -0.152
  263. gendstat: Morocco_Iberomaurusian Kostenki14 0.080
  264. gendstat: Morocco_Iberomaurusian Vestonice -0.013
  265. gendstat: Morocco_Iberomaurusian MA1 0.022
  266. gendstat: Morocco_Iberomaurusian Tianyuan 2.339
  267. gendstat: Morocco_Iberomaurusian DevilsCave_N 1.630
  268. gendstat: Morocco_Iberomaurusian Russia_EHG 0.234
  269. gendstat: Morocco_Iberomaurusian Loschbour -0.373
  270. gendstat: Morocco_Iberomaurusian Jordan_Late_PPNB 0.546
  271. gendstat: Morocco_Iberomaurusian Turkey_TepecikCiftlik_N.SG -0.572
  272. gendstat: Morocco_Iberomaurusian WSHG1 0.095
  273. gendstat: Morocco_Iberomaurusian Satsurblia_HG -1.086
  274. gendstat: Morocco_Iberomaurusian Pinarbasi 1.141
  275. gendstat: Morocco_Iberomaurusian Andaman_100BP 0.336
  276. gendstat: Anzick Kostenki14 0.204
  277. gendstat: Anzick Vestonice 0.123
  278. gendstat: Anzick MA1 0.159
  279. gendstat: Anzick Tianyuan 2.282
  280. gendstat: Anzick DevilsCave_N 1.639
  281. gendstat: Anzick Russia_EHG 0.344
  282. gendstat: Anzick Loschbour -0.169
  283. gendstat: Anzick Jordan_Late_PPNB 0.529
  284. gendstat: Anzick Turkey_TepecikCiftlik_N.SG -0.271
  285. gendstat: Anzick WSHG1 0.224
  286. gendstat: Anzick Satsurblia_HG -0.769
  287. gendstat: Anzick Pinarbasi 1.140
  288. gendstat: Anzick Andaman_100BP 0.448
  289. gendstat: Kostenki14 Vestonice -0.088
  290. gendstat: Kostenki14 MA1 -0.048
  291. gendstat: Kostenki14 Tianyuan 2.140
  292. gendstat: Kostenki14 DevilsCave_N 1.301
  293. gendstat: Kostenki14 Russia_EHG 0.152
  294. gendstat: Kostenki14 Loschbour -0.416
  295. gendstat: Kostenki14 Jordan_Late_PPNB 0.397
  296. gendstat: Kostenki14 Turkey_TepecikCiftlik_N.SG -0.535
  297. gendstat: Kostenki14 WSHG1 0.027
  298. gendstat: Kostenki14 Satsurblia_HG -1.036
  299. gendstat: Kostenki14 Pinarbasi 1.039
  300. gendstat: Kostenki14 Andaman_100BP 0.227
  301. gendstat: Vestonice MA1 0.031
  302. gendstat: Vestonice Tianyuan 2.156
  303. gendstat: Vestonice DevilsCave_N 1.375
  304. gendstat: Vestonice Russia_EHG 0.234
  305. gendstat: Vestonice Loschbour -0.336
  306. gendstat: Vestonice Jordan_Late_PPNB 0.490
  307. gendstat: Vestonice Turkey_TepecikCiftlik_N.SG -0.436
  308. gendstat: Vestonice WSHG1 0.104
  309. gendstat: Vestonice Satsurblia_HG -0.956
  310. gendstat: Vestonice Pinarbasi 1.082
  311. gendstat: Vestonice Andaman_100BP 0.303
  312. gendstat: MA1 Tianyuan 2.032
  313. gendstat: MA1 DevilsCave_N 1.239
  314. gendstat: MA1 Russia_EHG 0.199
  315. gendstat: MA1 Loschbour -0.332
  316. gendstat: MA1 Jordan_Late_PPNB 0.410
  317. gendstat: MA1 Turkey_TepecikCiftlik_N.SG -0.427
  318. gendstat: MA1 WSHG1 0.080
  319. gendstat: MA1 Satsurblia_HG -0.943
  320. gendstat: MA1 Pinarbasi 1.014
  321. gendstat: MA1 Andaman_100BP 0.252
  322. gendstat: Tianyuan DevilsCave_N -1.117
  323. gendstat: Tianyuan Russia_EHG -1.846
  324. gendstat: Tianyuan Loschbour -2.347
  325. gendstat: Tianyuan Jordan_Late_PPNB -1.578
  326. gendstat: Tianyuan Turkey_TepecikCiftlik_N.SG -2.605
  327. gendstat: Tianyuan WSHG1 -1.879
  328. gendstat: Tianyuan Satsurblia_HG -3.057
  329. gendstat: Tianyuan Pinarbasi -1.057
  330. gendstat: Tianyuan Andaman_100BP -2.047
  331. gendstat: DevilsCave_N Russia_EHG -1.051
  332. gendstat: DevilsCave_N Loschbour -1.634
  333. gendstat: DevilsCave_N Jordan_Late_PPNB -0.767
  334. gendstat: DevilsCave_N Turkey_TepecikCiftlik_N.SG -2.016
  335. gendstat: DevilsCave_N WSHG1 -1.144
  336. gendstat: DevilsCave_N Satsurblia_HG -2.386
  337. gendstat: DevilsCave_N Pinarbasi -0.202
  338. gendstat: DevilsCave_N Andaman_100BP -1.258
  339. gendstat: Russia_EHG Loschbour -0.522
  340. gendstat: Russia_EHG Jordan_Late_PPNB 0.232
  341. gendstat: Russia_EHG Turkey_TepecikCiftlik_N.SG -0.654
  342. gendstat: Russia_EHG WSHG1 -0.128
  343. gendstat: Russia_EHG Satsurblia_HG -1.123
  344. gendstat: Russia_EHG Pinarbasi 0.794
  345. gendstat: Russia_EHG Andaman_100BP 0.053
  346. gendstat: Loschbour Jordan_Late_PPNB 0.736
  347. gendstat: Loschbour Turkey_TepecikCiftlik_N.SG -0.101
  348. gendstat: Loschbour WSHG1 0.380
  349. gendstat: Loschbour Satsurblia_HG -0.629
  350. gendstat: Loschbour Pinarbasi 1.370
  351. gendstat: Loschbour Andaman_100BP 0.608
  352. gendstat: Jordan_Late_PPNB Turkey_TepecikCiftlik_N.SG -1.011
  353. gendstat: Jordan_Late_PPNB WSHG1 -0.316
  354. gendstat: Jordan_Late_PPNB Satsurblia_HG -1.430
  355. gendstat: Jordan_Late_PPNB Pinarbasi 0.577
  356. gendstat: Jordan_Late_PPNB Andaman_100BP -0.190
  357. gendstat: Turkey_TepecikCiftlik_N.SG WSHG1 0.479
  358. gendstat: Turkey_TepecikCiftlik_N.SG Satsurblia_HG -0.650
  359. gendstat: Turkey_TepecikCiftlik_N.SG Pinarbasi 1.573
  360. gendstat: Turkey_TepecikCiftlik_N.SG Andaman_100BP 0.776
  361. gendstat: WSHG1 Satsurblia_HG -0.956
  362. gendstat: WSHG1 Pinarbasi 0.888
  363. gendstat: WSHG1 Andaman_100BP 0.169
  364. gendstat: Satsurblia_HG Pinarbasi 2.035
  365. gendstat: Satsurblia_HG Andaman_100BP 1.280
  366. gendstat: Pinarbasi Andaman_100BP -0.778
  367.  
  368. ##end of qpAdm: 256.211 seconds cpu 1535.132 Mbytes in use
  369.  
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