- using R version 2.14.1 (2011-12-22)
- using platform: i386-apple-darwin9.8.0 (32-bit)
- using session charset: ASCII
- checking for file 'maxLik/DESCRIPTION' ... OK
- this is package 'maxLik' version '1.1-0'
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking whether package 'maxLik' can be installed ... OK
- checking installed package size ... OK
- checking package directory ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking index information ... OK
- checking package subdirectories ... OK
- checking R files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... OK
- checking whether the package can be loaded with stated dependencies ... OK
- checking whether the package can be unloaded cleanly ... OK
- checking whether the namespace can be loaded with stated dependencies ... OK
- checking whether the namespace can be unloaded cleanly ... OK
- checking for unstated dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... OK
- checking R code for possible problems ... NOTE
logLikGrad: no visible binding for global variable 'lastFuncParam'
logLikGrad: no visible binding for global variable 'lastFuncGrad'
- checking Rd files ... OK
- checking Rd metadata ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... OK
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking examples ... OK
- checking for unstated dependencies in tests ... OK
- checking tests ... OK
Running 'BFGSR.R'
Comparing 'BFGSR.Rout' to 'BFGSR.Rout.save' ... OK
Running 'constraints.R'
Comparing 'constraints.Rout' to 'constraints.Rout.save' ... OK
Running 'examples.R'
Comparing 'examples.Rout' to 'examples.Rout.save' ...16c16
< [1] -3.331680e-11 -5.643347e-11
---
> [1] 3.356099e-11 6.160799e-11
19c19
< [1] 1.110223e-10 1.110223e-10
---
> [1] -1.110223e-10 -1.110223e-10
55,56c55,56
< [1,] -3.331680e-11 1.110223e-10
< [2,] -5.643347e-11 1.110223e-10
---
> [1,] 3.356099e-11 -1.110223e-10
> [2,] 6.160799e-11 -1.110223e-10
178c178
< [1,] -1.98858e-09 -2.089472e-10
---
> [1,] -1.98858e-09 -2.089468e-10
200c200
< [1] 0.000000e+00 5.684342e-08
---
> [1] -5.684342e-08 -5.684342e-08
204,205c204,205
< [1,] -1004.821 0.000
< [2,] 0.000 -2009.756
---
> [1,] -1004.878 0.000
> [2,] 0.000 -2009.699
242,243c242,243
< [1,] 0.0063965 0.0315468 0.2028 0.8393
< [2,] 0.9975763 0.0223063 44.7216 <2e-16 ***
---
> [1,] 0.0063965 0.0315459 0.2028 0.8393
> [2,] 0.9975763 0.0223067 44.7210 <2e-16 ***
249,250c249,250
< [1,] -1004.821 0.000
< [2,] 0.000 -2009.756
---
> [1,] -1004.878 0.000
> [2,] 0.000 -2009.699
253,254c253,254
< [1,] 0.03154682 0.00000000
< [2,] 0.00000000 0.02230634
---
> [1,] 0.03154593 0.00000000
> [2,] 0.00000000 0.02230666
256c256
< [1] 0.03154682 0.02230634
---
> [1] 0.03154593 0.02230666
266c266
< [1] 0.006396536 1.000000000
---
> [1] 0.006396535 1.000000000
273c273
< [1,] -1000.046 NA
---
> [1,] -999.9894 NA
301c301
< Estimate(s): 0.006396536 1
---
> Estimate(s): 0.006396535 1
311c311
< [1,] 0.0063965 0.0316220 0.2023 0.8397
---
> [1,] 0.0063965 0.0316229 0.2023 0.8397
316c316
< [1,] -1000.046 NA
---
> [1,] -999.9894 NA
321c321
< [1,] 0.03162205
---
> [1,] 0.03162294
324c324
< [1] 0.03162205 0.00000000
---
> [1] 0.03162294 0.00000000
343c343
< [1] 1.5834e-05
---
> [1] 1.585043e-05
347c347
< [1,] -31.2923
---
> [1,] -31.37757
485c485
< [1,] 3.189999 1.5834e-05
---
> [1,] 3.189999 1.585043e-05
681c681
< [1] -4.775313e-05
---
> [1] -4.77513e-05
758c758
< [50,] 0.28867921
---
> [50,] 0.28867922
821c821
< [1,] 2.197878 -4.775313e-05
---
> [1,] 2.197878 -4.77513e-05
1006c1006
< [1] -5.45286e-07
---
> [1] 3.867462e-07
1010c1010
< [1,] -22.75868
---
> [1,] -22.78
1032,1131c1032,1131
< [1,] 0.453076477
< [2,] -0.333754285
< [3,] -0.379319592
< [4,] 0.071152589
< [5,] 0.204437581
< [6,] -0.832883578
< [7,] 0.101320906
< [8,] -1.659286411
< [9,] 0.374932950
< [10,] 0.454498447
< [11,] 0.005139757
< [12,] 0.103236076
< [13,] -0.458754700
< [14,] -0.456470540
< [15,] -0.127917557
< [16,] 0.304629493
< [17,] 0.138785655
< [18,] -0.001695442
< [19,] 0.217548295
< [20,] 0.019933574
< [21,] -0.723023986
< [22,] 0.160960447
< [23,] 0.278638986
< [24,] 0.257170030
< [25,] 0.203190902
< [26,] 0.349488726
< [27,] 0.254260185
< [28,] -0.142986622
< [29,] -0.367060766
< [30,] -0.464810788
< [31,] -0.151823012
< [32,] 0.082873517
< [33,] -0.483568647
< [34,] 0.472857720
< [35,] 0.213409170
< [36,] 0.283580656
< [37,] 0.433195338
< [38,] 0.318162300
< [39,] 0.013858595
< [40,] 0.031204072
< [41,] 0.136507200
< [42,] 0.356412479
< [43,] -0.254104131
< [44,] 0.409527097
< [45,] -0.021114778
< [46,] 0.172770570
< [47,] -0.243260242
< [48,] -0.821155645
< [49,] 0.215106795
< [50,] -0.065112115
< [51,] -0.202857482
< [52,] -0.057356525
< [53,] -1.640491070
< [54,] 0.414101941
< [55,] 0.405286196
< [56,] 0.437213113
< [57,] -0.079218895
< [58,] 0.153157688
< [59,] -0.460444699
< [60,] -0.162073234
< [61,] -0.003462051
< [62,] -0.056984557
< [63,] 0.462446765
< [64,] -0.530977825
< [65,] 0.292494962
< [66,] -0.161659571
< [67,] -1.125602194
< [68,] 0.348080885
< [69,] 0.411331368
< [70,] 0.187929021
< [71,] -0.452236468
< [72,] 0.144561086
< [73,] 0.446811306
< [74,] 0.054008029
< [75,] 0.270582378
< [76,] -0.011709388
< [77,] 0.217714587
< [78,] -0.356963304
< [79,] 0.352124482
< [80,] -0.832331898
< [81,] 0.198150416
< [82,] 0.472163842
< [83,] 0.249348846
< [84,] 0.167729757
< [85,] 0.219018534
< [86,] 0.171749316
< [87,] 0.309892356
< [88,] 0.463958048
< [89,] -0.428327252
< [90,] 0.414486121
< [91,] 0.092506968
< [92,] 0.258234384
< [93,] -0.488154645
< [94,] 0.459729259
< [95,] -0.802043036
< [96,] 0.412443152
< [97,] 0.053559969
< [98,] 0.178618254
< [99,] -0.136453220
< [100,] 0.166149992
---
> [1,] 0.453076486
> [2,] -0.333754275
> [3,] -0.379319583
> [4,] 0.071152598
> [5,] 0.204437590
> [6,] -0.832883569
> [7,] 0.101320915
> [8,] -1.659286401
> [9,] 0.374932959
> [10,] 0.454498456
> [11,] 0.005139766
> [12,] 0.103236085
> [13,] -0.458754690
> [14,] -0.456470531
> [15,] -0.127917548
> [16,] 0.304629502
> [17,] 0.138785664
> [18,] -0.001695432
> [19,] 0.217548304
> [20,] 0.019933583
> [21,] -0.723023977
> [22,] 0.160960457
> [23,] 0.278638996
> [24,] 0.257170039
> [25,] 0.203190912
> [26,] 0.349488735
> [27,] 0.254260194
> [28,] -0.142986612
> [29,] -0.367060756
> [30,] -0.464810778
> [31,] -0.151823003
> [32,] 0.082873526
> [33,] -0.483568638
> [34,] 0.472857729
> [35,] 0.213409179
> [36,] 0.283580665
> [37,] 0.433195348
> [38,] 0.318162310
> [39,] 0.013858604
> [40,] 0.031204081
> [41,] 0.136507210
> [42,] 0.356412488
> [43,] -0.254104122
> [44,] 0.409527106
> [45,] -0.021114769
> [46,] 0.172770579
> [47,] -0.243260232
> [48,] -0.821155636
> [49,] 0.215106805
> [50,] -0.065112106
> [51,] -0.202857472
> [52,] -0.057356516
> [53,] -1.640491060
> [54,] 0.414101950
> [55,] 0.405286205
> [56,] 0.437213122
> [57,] -0.079218885
> [58,] 0.153157698
> [59,] -0.460444690
> [60,] -0.162073225
> [61,] -0.003462042
> [62,] -0.056984548
> [63,] 0.462446774
> [64,] -0.530977815
> [65,] 0.292494971
> [66,] -0.161659562
> [67,] -1.125602184
> [68,] 0.348080895
> [69,] 0.411331377
> [70,] 0.187929030
> [71,] -0.452236459
> [72,] 0.144561096
> [73,] 0.446811315
> [74,] 0.054008039
> [75,] 0.270582387
> [76,] -0.011709379
> [77,] 0.217714597
> [78,] -0.356963294
> [79,] 0.352124491
> [80,] -0.832331888
> [81,] 0.198150426
> [82,] 0.472163851
> [83,] 0.249348856
> [84,] 0.167729767
> [85,] 0.219018543
> [86,] 0.171749325
> [87,] 0.309892365
> [88,] 0.463958057
> [89,] -0.428327243
> [90,] 0.414486131
> [91,] 0.092506977
> [92,] 0.258234393
> [93,] -0.488154635
> [94,] 0.459729268
> [95,] -0.802043026
> [96,] 0.412443161
> [97,] 0.053559978
> [98,] 0.178618263
> [99,] -0.136453211
> [100,] 0.166150001
1150c1150
< [1,] 2.09534 0.20962 9.996 < 2.2e-16 ***
---
> [1,] 2.09534 0.20952 10.001 < 2.2e-16 ***
1164c1164
< [1] 4.614952e-08
---
> [1] 4.614954e-08
1346c1346
< [1] -2.415845e-07
---
> [1] -6.07514e-07
1350c1350
< [1,] -21.61826
---
> [1,] -21.6005
1381c1381
< [1,] 2.151027 -2.415845e-07
---
> [1,] 2.151027 -6.07514e-07
1445c1445
< [1] 1.110223e-10 0.000000e+00
---
> [1] 1.110223e-10 1.110223e-10
1449c1449
< [1,] -2.000178 0.000000
---
> [1,] -1.999956 0.000000
1482c1482
< [2,] 1 0.000000e+00
---
> [2,] 1 1.110223e-10
1496c1496
< [1] 1.088019e-08 5.329071e-09
---
> [1] 6.661338e-09 3.108624e-09
1501c1501
< [2,] 0.000000 -1.999956
---
> [2,] 0.000000 -2.000178
1517c1517
< 26
---
> 31
1530c1530
< Number of iterations: 26
---
> Number of iterations: 31
1536,1537c1536,1537
< [1,] 2 1.088019e-08
< [2,] 1 5.329071e-09
---
> [1,] 2 6.661338e-09
> [2,] 1 3.108624e-09
1822a1823
> -----Iteration 6 -----
1825c1826
< 5 iterations
---
> 6 iterations
1836c1837
< [1] -5.290768e-07
---
> [1] 2.664535e-09
1840c1841
< [1,] -17.27507
---
> [1,] -17.26619
1855c1856
< [1] 5
---
> [1] 6
1862c1863
< [1,] 0.31349469
---
> [1,] 0.31349470
1864c1865
< [3,] 0.28839131
---
> [3,] 0.28839132
1867c1868
< [6,] -0.96146695
---
> [6,] -0.96146694
1870,1871c1871,1872
< [9,] 0.20898017
< [10,] 0.26053656
---
> [9,] 0.20898018
> [10,] 0.26053657
1875,1880c1876,1881
< [14,] -0.14609109
< [15,] -1.16675830
< [16,] -0.67553796
< [17,] -0.01994509
< [18,] 0.02832110
< [19,] -0.72866673
---
> [14,] -0.14609108
> [15,] -1.16675829
> [16,] -0.67553795
> [17,] -0.01994508
> [18,] 0.02832111
> [19,] -0.72866672
1882,1886c1883,1887
< [21,] 0.05079754
< [22,] -0.11852100
< [23,] -0.04543071
< [24,] 0.07171066
< [25,] -1.85966637
---
> [21,] 0.05079755
> [22,] -0.11852099
> [23,] -0.04543070
> [24,] 0.07171067
> [25,] -1.85966636
1888,1890c1889,1891
< [27,] 0.20148879
< [28,] 0.14710494
< [29,] 0.32964510
---
> [27,] 0.20148880
> [28,] 0.14710495
> [29,] 0.32964511
1893c1894
< [32,] 0.09780430
---
> [32,] 0.09780431
1901c1902
< [40,] -0.24059135
---
> [40,] -0.24059134
1906,1908c1907,1909
< [45,] 0.15061830
< [46,] 0.35935744
< [47,] -0.16595146
---
> [45,] 0.15061831
> [46,] 0.35935745
> [47,] -0.16595145
1910,1916c1911,1917
< [49,] 0.41140163
< [50,] -0.85562290
< [51,] 0.36920972
< [52,] 0.01178106
< [53,] 0.09068438
< [54,] -0.41852213
< [55,] 0.16272514
---
> [49,] 0.41140164
> [50,] -0.85562289
> [51,] 0.36920973
> [52,] 0.01178107
> [53,] 0.09068439
> [54,] -0.41852212
> [55,] 0.16272515
1918,1923c1919,1924
< [57,] -0.24092056
< [58,] 0.39321671
< [59,] 0.18728635
< [60,] -0.06962235
< [61,] -0.52603690
< [62,] 0.36746124
---
> [57,] -0.24092055
> [58,] 0.39321672
> [59,] 0.18728636
> [60,] -0.06962234
> [61,] -0.52603689
> [62,] 0.36746125
1925,1926c1926,1927
< [64,] 0.21913251
< [65,] 0.25758624
---
> [64,] 0.21913252
> [65,] 0.25758625
1929,1932c1930,1933
< [68,] -0.03089787
< [69,] -0.09985512
< [70,] -0.65673215
< [71,] 0.05177161
---
> [68,] -0.03089786
> [69,] -0.09985511
> [70,] -0.65673214
> [71,] 0.05177162
1934c1935
< [73,] 0.32399268
---
> [73,] 0.32399269
1936c1937
< [75,] 0.20941895
---
> [75,] 0.20941896
1939,1941c1940,1942
< [78,] -0.13051166
< [79,] -1.34923502
< [80,] -0.05024057
---
> [78,] -0.13051165
> [79,] -1.34923501
> [80,] -0.05024056
1946c1947
< [85,] 0.15766216
---
> [85,] 0.15766217
1948c1949
< [87,] 0.21483082
---
> [87,] 0.21483083
1950,1955c1951,1956
< [89,] 0.21807874
< [90,] 0.22107734
< [91,] -0.07248146
< [92,] 0.26975748
< [93,] -0.06964577
< [94,] 0.30825550
---
> [89,] 0.21807875
> [90,] 0.22107735
> [91,] -0.07248145
> [92,] 0.26975749
> [93,] -0.06964576
> [94,] 0.30825551
1957c1958
< [96,] 0.15251408
---
> [96,] 0.15251409
1959c1960
< [98,] 0.07499088
---
> [98,] 0.07499089
1961c1962
< [100,] 0.09384336
---
> [100,] 0.09384337
1967c1968
< Newton-Raphson maximisation, 5 iterations
---
> Newton-Raphson maximisation, 6 iterations
1974c1975
< Newton-Raphson maximisation, 5 iterations
---
> Newton-Raphson maximisation, 6 iterations
1980c1981
< [1,] 2.4061 0.2406 10.001 < 2.2e-16 ***
---
> [1,] 2.40611 0.24066 9.998 < 2.2e-16 ***
1994c1995
< [1] 5.223599e-14
---
> [1] 5.245804e-14
2338c2339
< [1] -3.469447e-08
---
> [1] 2.264855e-08
2342c2343
< [1,] -28.79119
---
> [1,] -28.81251
2375c2376
< [12,] 0.39362983
---
> [12,] 0.39362984
2389c2390
< [26,] 0.40288505
---
> [26,] 0.40288506
2401c2402
< [38,] -0.41533744
---
> [38,] -0.41533743
2410c2411
< [47,] 0.53061905
---
> [47,] 0.53061906
2419c2420
< [56,] -0.14645101
---
> [56,] -0.14645100
2430c2431
< [67,] 0.50739639
---
> [67,] 0.50739640
2475c2476
< [1,] 0.03473285
---
> [1,] 0.03470715
Running 'finalHessian.R'
Comparing 'finalHessian.Rout' to 'finalHessian.Rout.save' ... OK
Running 'fitExpDist.R'
Comparing 'fitExpDist.Rout' to 'fitExpDist.Rout.save' ...458c458
< as.Date, as.Date.numeric
---
> as.Date
Running 'fitNormalDist.R'
Comparing 'fitNormalDist.Rout' to 'fitNormalDist.Rout.save' ...6216c6216
< sigma 1.684 0.108 15.64 <2e-16 ***
---
> sigma 1.684 0.108 15.63 <2e-16 ***
6236c6236
< sigma 3.6171
---
> sigma 3.6159
6240c6240
< sigma -15.291 -92.854
---
> sigma -15.291 -92.797
6256,6257c6256,6257
< mu 0.0305313 -0.0050278
< sigma -0.0050278 0.0115976
---
> mu 0.0305327 -0.0050311
> sigma -0.0050311 0.0116052
6264c6264
< [4] "Component 4: Mean relative difference: 0.0069842"
---
> [4] "Component 4: Mean relative difference: 0.007345"
6271c6271
< [1] "Component 4: Mean relative difference: 0.00060302"
---
> [1] "Component 4: Mean relative difference: 0.00024494"
6303c6303
< [4] "Component 4: Mean relative difference: 0.7653"
---
> [4] "Component 4: Mean relative difference: 0.76467"
6317c6317
< as.Date, as.Date.numeric
---
> as.Date
Running 'methods.R'
Comparing 'methods.Rout' to 'methods.Rout.save' ...16d15
< >
- checking PDF version of manual ... OK
- elapsed time (check, wall clock): 2:42