Check results for 'fpc'

using R Under development (unstable) (2012-05-19 r59366)
using platform: x86_64-unknown-linux-gnu (64-bit)
using session charset: UTF-8
checking for file ‘fpc/DESCRIPTION’ ... OK
this is package ‘fpc’ version ‘2.0-3’
checking package dependencies ... OK
checking if this is a source package ... OK
checking if there is a namespace ... WARNING
As from R 2.14.0 all packages need a namespace.
One will be generated on installation, but it is better to handcraft a
NAMESPACE file: R CMD build will produce a suitable starting point.
CRAN requires a NAMESPACE file for all submissions.
checking for executable files ... OK
checking whether package ‘fpc’ 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 loading without being on the library search path ... 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
File ‘fpc/R/fpc.R’:
.First.lib calls:
require(cluster)
require(MASS)

Package startup functions should not change the search path.
See section ‘Good practice’ in ?.onAttach.

dip.pvalue: no visible binding for global variable ‘qDiptab’
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 contents of ‘data’ directory ... OK
checking data for non-ASCII characters ... OK
checking data for ASCII and uncompressed saves ... OK
checking examples ... [10s/10s] OK
checking differences from ‘fpc-Ex.Rout’ to ‘fpc-Ex.Rout.save’ ...
1a2
>
6d6
<
139,141c139,141
< [1,] 1.0000000 9.987508e-01 1.00000e+00
< [2,] 0.9987508 1.000000e+00 1.78102e-11
< [3,] 1.0000000 1.781020e-11 1.00000e+00
---
> [1,] 1.0000000 9.987508e-01 1.000000e+00
> [2,] 0.9987508 1.000000e+00 1.781020e-11
> [3,] 1.0000000 1.781020e-11 1.000000e+00
322c322
< [1] 13.7291
---
> [1] 13.72910
751c751
< 0.183
---
> 0.686
754c754
< 0.131
---
> 0.412
758c758
< 0.555
---
> 0.736
896,898c896,898
< [1,] 0.84359426 -1.14608710 0.02209846
< [2,] -0.33649001 -0.27903245 0.01187219
< [3,] -0.06808816 -0.03965075 -1.00303099
---
> [1,] 0.84359426 1.14608710 0.02209846
> [2,] -0.33649001 0.27903245 0.01187219
> [3,] -0.06808816 0.03965075 -1.00303099
906,908c906,908
< [1,] -1.29527821 0.50007753 -0.33960121
< [2,] 0.65331636 0.05164296 -0.08010673
< [3,] -0.08051801 -0.66005066 -0.46509088
---
> [1,] -1.2952782 0.50007753 -0.33960121
> [2,] 0.6533164 0.05164296 -0.08010673
> [3,] -0.0805180 -0.66005066 -0.46509088
1042,1045c1042,1045
< Sepal.Length 0.4364358 0.2255444 0.86784913 7.410413e-02
< Sepal.Width 0.6546537 0.5833044 -0.48081650 1.152417e-05
< Petal.Length -0.4364358 0.5910818 0.12282998 -6.671273e-01
< Petal.Width -0.4364358 0.5094192 0.02379441 7.412487e-01
---
> Sepal.Length 0.4364358 0.2255444 0.86784904 7.410527e-02
> Sepal.Width 0.6546537 0.5833044 -0.48081650 1.089355e-05
> Petal.Length -0.4364358 0.5910818 0.12283086 -6.671272e-01
> Petal.Width -0.4364358 0.5094192 0.02379343 7.412488e-01
1058,1061c1058,1061
< Sepal.Length 0.3685213 0.9175803 -0.0161054 0.1482532
< Sepal.Width -0.4237402 0.3056933 0.2672553 -0.8096731
< Petal.Length -0.7834017 0.2490473 -0.4429863 0.3577993
< Petal.Width -0.2663044 0.0507288 0.8556158 0.4409424
---
> Sepal.Length 0.3685213 0.9175803 -0.01610540 0.1482532
> Sepal.Width -0.4237402 0.3056933 0.26725530 -0.8096731
> Petal.Length -0.7834017 0.2490473 -0.44298628 0.3577993
> Petal.Width -0.2663044 0.0507288 0.85561579 0.4409424
1066,1069c1066,1069
< Sepal.Length 0.78842369 -0.1589992 -0.5596188 -0.1998354
< Sepal.Width 0.60787954 0.3492963 0.6715425 0.2398025
< Petal.Length 0.04212018 -0.4129676 0.4574837 -0.7863792
< Petal.Width 0.08424036 -0.8259353 0.1629913 0.5330744
---
> Sepal.Length 0.78842369 -0.1589992 -0.5613449 -0.1949340
> Sepal.Width 0.60787954 0.3492963 0.6736139 0.2339208
> Petal.Length 0.04212018 -0.4129676 0.4505895 -0.7903498
> Petal.Width 0.08424036 -0.8259353 0.1676467 0.5316287
1082,1085c1082,1085
< Sepal.Length 0.07550285 0.6328310 0.67278171 0.37575125
< Sepal.Width -0.17216644 0.4934753 0.03098703 -0.85198630
< Petal.Length -0.74300787 -0.4180672 0.51749754 -0.07318086
< Petal.Width -0.64233740 0.4257075 -0.52782655 0.35717629
---
> Sepal.Length 0.07550285 0.6328310 -0.7566467 0.1459795
> Sepal.Width -0.17216644 0.4934753 0.2375780 -0.8187781
> Petal.Length -0.74300787 -0.4180672 -0.4684942 -0.2316729
> Petal.Width -0.64233740 0.4257075 0.3893015 0.5045989
1098,1101c1098,1101
< Sepal.Length 0.7730041 -0.09914374 0.62452138 -0.0510699878
< Sepal.Width 0.4418583 0.79204432 -0.42122054 -0.0005715947
< Petal.Length -0.4416270 0.59416223 0.65375908 0.1566395315
< Petal.Width -0.1104150 0.09903318 0.07173123 -0.9863344193
---
> Sepal.Length 0.7730041 -0.09914374 0.6101968 -0.14246043
> Sepal.Width 0.4418583 0.79204432 -0.4167145 0.06145005
> Petal.Length -0.4416270 0.59416223 0.6696965 0.05868099
> Petal.Width -0.1104150 0.09903318 -0.0742664 -0.98614677
1266c1266
< Constant ca= 10.0701
---
> Constant ca= 10.07010
1274c1274
< Ratio to estimated expectation: 1.5872
---
> Ratio to estimated expectation: 1.587200
1283c1283
< Ratio to estimated expectation: 2.08242
---
> Ratio to estimated expectation: 2.082420
1355c1355
< Nonoptimal or repeated fit found in run 2
---
> k= 2 new best fit found in run 2
1359c1359
< k= 3 BIC= 1292.826
---
> k= 3 BIC= 1300.073
1370,1371c1370,1371
< Comp.1 0.506 48 100 0.48
< Comp.2 0.494 52 100 0.52
---
> Comp.1 0.527 51 100 0.51
> Comp.2 0.473 49 100 0.49
1378,1379c1378,1379
< [38] 2 2 1 2 1 1 2 2 1 1 2 2 2 1 2 1 1 2 2 1 2 2 2 1 2 1 1 2 1 1 2 2 2 1 2 2 1
< [75] 1 1 1 2 2 1 2 1 1 1 1 2 2 1 2 1 1 2 1 2 2 2 2 2 2 2
---
> [38] 2 2 1 2 1 1 2 2 1 1 2 1 2 1 2 1 1 2 2 1 2 2 2 1 2 1 1 2 1 1 2 2 1 1 2 2 1
> [75] 1 1 1 2 2 1 2 1 1 1 1 2 1 1 2 1 1 2 1 2 2 2 2 2 2 2
1384c1384
< [1] -0.06786994 -0.54104769
---
> [1] -0.06364726 -0.51088660
1388,1389c1388,1389
< [1,] 1.13052 0.000000
< [2,] 0.00000 1.091476
---
> [1,] 1.122126 0.000000
> [2,] 0.000000 1.096735
1393c1393
< [1] 0.27877309 0.22952064 0.14780796 0.30344389 0.04045442
---
> [1] 0.27279622 0.22617675 0.15713052 0.29791908 0.04597742
1396c1396
< [1] 0.1441872 0.1676908 0.5133395 0.1747825
---
> [1] 0.1490151 0.1719611 0.5061025 0.1729213
1404c1404
< [1] 0.2365028 0.4120134
---
> [1] 0.2462103 0.4234742
1408,1409c1408,1409
< [1,] 0.6873457 0.0000000
< [2,] 0.0000000 0.8517165
---
> [1,] 0.6738187 0.0000000
> [2,] 0.0000000 0.8547246
1413c1413
< [1] 0.09927107 0.16982896 0.27356225 0.05383639 0.40350133
---
> [1] 0.09744369 0.17073751 0.26910177 0.04818053 0.41453650
1416c1416
< [1] 0.27726281 0.41500389 0.06173992 0.24599338
---
> [1] 0.2781738 0.4219535 0.0484232 0.2514495
1493,1499d1492
<
< Attaching package: 'prabclus'
<
< The following object(s) are masked from 'package:fpc':
<
< con.comp
<
1529,1530c1522,1523
< [1,] -0.4301944 0.1259479 -0.1113803 -0.1112671 0.103153 -0.129418 -0.1113858
< [2,] 3.2115590 6.8582670 5.3351123 5.3353299 6.953000 7.402776 5.3351018
---
> [1,] -0.4301944 0.1259479 -0.1113803 -0.1112671 0.1031530 -0.1294180 -0.1113858
> [2,] 3.2115590 6.8582670 5.3351123 5.3353299 6.9529995 7.4027761 5.3351018
1665,1670c1658,1663
< [,1] [,2] [,3] [,4] [,5] [,6] [,7]
< [1,] 0.3593477 0.3641063 -0.1113878 0.4429484 0.103153 -0.129418 -0.1113858
< [2,] 12.4801629 12.5943626 5.3350959 13.7169107 6.953000 7.402776 5.3351018
< [,8] [,9] [,10]
< [1,] -0.1115167 2.056731 -1.531638
< [2,] 5.3348502 17.205746 17.205554
---
> [,1] [,2] [,3] [,4] [,5] [,6]
> [1,] 0.3593477 0.3641063 -0.1113878 0.4429484 0.1031530 -0.1294180
> [2,] 12.4801629 12.5943626 5.3350959 13.7169107 6.9529995 7.4027761
> [,7] [,8] [,9] [,10]
> [1,] -0.1113858 -0.1115167 2.056731 -1.531638
> [2,] 5.3351018 5.3348502 17.205746 17.205554
1676,1677c1669,1670
< [1,] 3.520894 1.18919
< [2,] 1.189190 67.08240
---
> [1,] 3.520894 1.189190
> [2,] 1.189190 67.082397
2276,2279c2269,2272
< [1,] 0.069319855 0.0518654013 0.0046861756 0.0095378232
< [2,] 0.051865401 0.0431639712 0.0004953638 0.0007921612
< [3,] 0.004686176 0.0004953638 0.0032597388 0.0062255655
< [4,] 0.009537823 0.0007921612 0.0062255655 0.0124822565
---
> [1,] 0.069320616 0.0518644883 0.0046873868 0.009536685
> [2,] 0.051864488 0.0431650668 0.0004939104 0.000793527
> [3,] 0.004687387 0.0004939104 0.0032572771 0.006225948
> [4,] 0.009536685 0.0007935271 0.0062259484 0.012482862
2292,2295c2285,2288
< [1,] 0.0077020291 0.003885942 -0.01056405 -0.0009142804
< [2,] 0.0038859417 0.007498913 0.01063072 0.0157883091
< [3,] -0.0105640457 0.010630720 0.06416071 0.0496007520
< [4,] -0.0009142804 0.015788309 0.04960075 0.0488641667
---
> [1,] 0.007749167 0.003807059 -0.01056156 -0.000890472
> [2,] 0.003807059 0.007520730 0.01058065 0.015831108
> [3,] -0.010561560 0.010580649 0.06414171 0.049636441
> [4,] -0.000890472 0.015831108 0.04963644 0.048814211
2308,2311c2301,2304
< [1,] 0.066426726 0.036301977 -0.038563799 -0.009580652
< [2,] 0.036301977 0.032397906 -0.013662418 -0.004068082
< [3,] -0.038563799 -0.013662418 0.027805813 0.006407895
< [4,] -0.009580652 -0.004068082 0.006407895 0.001595376
---
> [1,] 0.066419771 0.036305431 -0.038563657 -0.009616086
> [2,] 0.036305431 0.032396421 -0.013663871 -0.004044032
> [3,] -0.038563657 -0.013663871 0.027814107 0.006369898
> [4,] -0.009616086 -0.004044032 0.006369898 0.001595522
2316,2335c2309,2328
< 122 1.000000e+00 0.000000e+00 0.0000000 0.000000e+00 0 0.0000000
< 42 1.000000e+00 1.000000e+00 0.0000000 0.000000e+00 0 0.0000000
< 45 7.431477e-78 7.431477e-78 1.0000000 0.000000e+00 0 0.0000000
< 86 1.000000e+00 0.000000e+00 0.0000000 1.027899e-264 0 0.0000000
< 70 1.074570e-19 0.000000e+00 0.0000000 1.000000e+00 0 0.0000000
< 137 4.297997e-134 0.000000e+00 0.0000000 0.000000e+00 1 0.0000000
< 37 9.430013e-103 9.430013e-103 1.0000000 0.000000e+00 0 0.0000000
< 46 1.000000e+00 1.000000e+00 0.0000000 0.000000e+00 0 0.0000000
< 134 0.000000e+00 0.000000e+00 0.0000000 0.000000e+00 0 0.0000000
< 88 0.000000e+00 0.000000e+00 0.0000000 0.000000e+00 0 1.0000000
< 72 2.878919e-90 0.000000e+00 0.0000000 1.000000e+00 0 0.0000000
< 123 0.000000e+00 0.000000e+00 0.0000000 0.000000e+00 0 0.0000000
< 1 8.836887e-28 8.836887e-28 1.0000000 0.000000e+00 0 0.0000000
< 147 1.422993e-288 0.000000e+00 0.0000000 0.000000e+00 0 1.0000000
< 51 0.000000e+00 0.000000e+00 0.0000000 0.000000e+00 0 0.0000000
< 120 0.000000e+00 0.000000e+00 0.0000000 0.000000e+00 0 0.9998512
< 9 1.000000e+00 1.000000e+00 0.0000000 0.000000e+00 0 0.0000000
< 18 3.526927e-03 3.526927e-03 0.9964731 0.000000e+00 0 0.0000000
< 28 8.360527e-61 8.360527e-61 1.0000000 0.000000e+00 0 0.0000000
< 54 2.602925e-34 0.000000e+00 0.0000000 1.000000e+00 0 0.0000000
---
> 122 1.000000e+00 0.000000e+00 0.000000 0.00000e+00 0 0.000000e+00
> 42 1.000000e+00 1.000000e+00 0.000000 0.00000e+00 0 0.000000e+00
> 45 7.431477e-78 7.431477e-78 1.000000 0.00000e+00 0 0.000000e+00
> 86 1.000000e+00 0.000000e+00 0.000000 7.61652e-267 0 0.000000e+00
> 70 1.074570e-19 0.000000e+00 0.000000 1.00000e+00 0 0.000000e+00
> 137 4.300906e-134 0.000000e+00 0.000000 0.00000e+00 1 0.000000e+00
> 37 9.430013e-103 9.430013e-103 1.000000 0.00000e+00 0 0.000000e+00
> 46 1.000000e+00 1.000000e+00 0.000000 0.00000e+00 0 0.000000e+00
> 134 0.000000e+00 0.000000e+00 0.000000 0.00000e+00 0 0.000000e+00
> 88 0.000000e+00 0.000000e+00 0.000000 0.00000e+00 0 1.000000e+00
> 72 2.877478e-90 0.000000e+00 0.000000 1.00000e+00 0 0.000000e+00
> 123 0.000000e+00 0.000000e+00 0.000000 0.00000e+00 0 0.000000e+00
> 1 8.836887e-28 8.836887e-28 1.000000 0.00000e+00 0 0.000000e+00
> 147 1.424320e-288 0.000000e+00 0.000000 0.00000e+00 0 1.000000e+00
> 51 0.000000e+00 0.000000e+00 0.000000 0.00000e+00 0 0.000000e+00
> 120 0.000000e+00 0.000000e+00 0.000000 0.00000e+00 0 9.998512e-01
> 9 1.000000e+00 1.000000e+00 0.000000 0.00000e+00 0 0.000000e+00
> 18 3.526927e-03 3.526927e-03 0.996473 0.00000e+00 0 0.000000e+00
> 28 8.360527e-61 8.360527e-61 1.000000 0.00000e+00 0 0.000000e+00
> 54 2.602855e-34 0.000000e+00 0.000000 1.00000e+00 0 1.825211e-292
2346c2339
< 88 0.000000e+00 7.026138e-62
---
> 88 0.000000e+00 4.085183e-80
2401c2394
< 93.1465719 138.3375500 119.1334177 117.5885785 168.8774326 150.4594812
---
> 93.1465719 138.3375499 119.1334177 117.5885785 168.8774326 150.4594812
2789,2795d2781
<
< Attaching package: 'prabclus'
<
< The following object(s) are masked from 'package:fpc':
<
< con.comp
<
OK
checking for unstated dependencies in tests ... OK
checking tests ... [17s/17s] OK
Running ‘fpctests.R’ [17s/17s]
Comparing ‘fpctests.Rout’ to ‘fpctests.Rout.save’ ...5a6
>
10d10
<
18,20c18,20
< [1,] 0.15483456 -0.373414780 -0.492462162
< [2,] -0.19811181 -0.006004317 0.001318905
< [3,] 0.04822913 -0.497591674 0.662878052
---
> [1,] 0.15483456 0.373414780 0.492462162
> [2,] -0.19811181 0.006004317 -0.001318905
> [3,] 0.04822913 0.497591674 -0.662878052
23,25c23,25
< [1,] -1.39122951 -0.30933547 0.10928950
< [2,] 0.62109134 -0.22334223 0.01643619
< [3,] -0.03130796 0.07485511 -0.80738843
---
> [1,] -1.39122951 -0.3093355 0.10928950
> [2,] 0.62109134 -0.2233422 0.01643619
> [3,] -0.03130796 0.0748551 -0.80738843
28,30c28,30
< [1,] 0.2153917 -0.33885087 -0.518856215
< [2,] -0.3702908 0.01439633 -0.008930009
< [3,] 0.1108281 0.79140767 -0.235742343
---
> [1,] 0.2153917 -0.33885087 -0.51885622
> [2,] -0.3702908 0.01439633 -0.00893001
> [3,] 0.1108281 0.79140767 -0.23574234
37c37
< 4 clusters 833.1691
---
> 4 clusters 833.169
92,94c92,94
< 12 13.9716414 13.677807 14.503586 13.94655 14.0084574 13.6015727 13.784232
< 34 0.3227397 0.459568 0.841392 1.21862 0.4964457 0.1656088 2.670075
< 50 14.6877989 15.036740 14.241074 15.09286 14.7181912 14.9490175 14.477326
---
> 12 13.9716414 13.677807 14.503586 13.946552 14.0084574 13.6015727 13.784232
> 34 0.3227397 0.459568 0.841392 1.218620 0.4964457 0.1656088 2.670075
> 50 14.6877989 15.036740 14.241074 15.092859 14.7181912 14.9490175 14.477326
592,598d591
<
< Attaching package: 'prabclus'
<
< The following object(s) are masked from 'package:fpc':
<
< con.comp
<
810,811c803,804
< [1] 4 4 4 3 4 3 3 1 5 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 2 2 2 2 2 2
< [39] 2 2 2 1 1 1 1 1 5 5 5 5
---
> [1] 1 1 1 4 1 4 4 3 5 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 2 2 2 2 2 2
> [39] 2 2 2 3 3 3 3 3 5 5 5 5
814,817c807,810
< 4 0.6842995 1.2614578
< 29 0.8974744 -1.0022315
< 24 -0.7193505 0.1440717
< 1 -0.4994704 -1.4250867
---
> 2 -0.4994704 -1.4250867
> 41 0.8974744 -1.0022315
> 11 0.6842995 1.2614578
> 15 -0.7193505 0.1440717
828c821
< [1] FALSE FALSE FALSE FALSE FALSE FALSE FALSE TRUE FALSE FALSE FALSE FALSE
---
> [1] TRUE TRUE TRUE FALSE TRUE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
831c824
< [37] FALSE FALSE FALSE FALSE FALSE TRUE TRUE TRUE TRUE TRUE FALSE FALSE
---
> [37] FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
842,845c835,838
< [1] FALSE FALSE FALSE TRUE FALSE TRUE TRUE FALSE FALSE TRUE TRUE TRUE
< [13] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
< [25] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE FALSE FALSE FALSE FALSE
< [37] FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
---
> [1] FALSE FALSE FALSE FALSE FALSE FALSE FALSE TRUE FALSE FALSE FALSE FALSE
> [13] FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
> [25] FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
> [37] FALSE FALSE FALSE FALSE FALSE TRUE TRUE TRUE TRUE TRUE FALSE FALSE
849,851c842,844
< [1] TRUE TRUE TRUE FALSE TRUE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
< [13] FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
< [25] FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE FALSE
---
> [1] FALSE FALSE FALSE TRUE FALSE TRUE TRUE FALSE FALSE TRUE TRUE TRUE
> [13] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
> [25] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE FALSE FALSE FALSE FALSE
864,865c857,858
< [1] 4 4 4 3 4 3 3 1 5 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 2 2 2 2 2 2
< [39] 2 2 2 1 1 1 1 1 5 5 5 5
---
> [1] 1 1 1 4 1 4 4 3 5 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 2 2 2 2 2 2
> [39] 2 2 2 3 3 3 3 3 5 5 5 5
906c899
< [1] 15.23
---
> [1] 15.23000
checking PDF version of manual ... OK
WARNING: There was 1 warning.
NOTE: There was 1 note.
See
‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/fpc.Rcheck/00check.log’
for details.