• using R version 2.13.1 Patched (2011-07-29 r56550)
• using platform: i386-apple-darwin9.8.0 (32-bit)
• using session charset: ASCII
• checking for file 'proxy/DESCRIPTION' ... OK
• checking extension type ... Package
• this is package 'proxy' version '0.4-7'
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking for executable files ... OK
• checking whether package 'proxy' 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
• loading checks for arch 'i386'
  ** 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
• loading checks for arch 'x86_64'
  ** 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 ... OK
• 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 line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking sizes of PDF files under inst/doc ... OK
• checking examples ...
  ** running examples for arch 'i386' ... OK
  ** running examples for arch 'x86_64' ... OK
• checking for unstated dependencies in tests ... OK
• checking tests ...
  ** running tests for arch 'i386' OK
  Running 'apply.R'
  Comparing 'apply.Rout' to 'apply.Rout.save' ...10d9
  < The following object(s) are masked from 'package:stats':
  12c11,14
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  24,28c26,30
  < [1,] 0.4595829 0.246283120 0.6662151 0.2658000
  < [2,] 0.8390691 0.002929016 0.3449861 0.4751930
  < [3,] 0.0377036 0.300615279 0.1399626 0.5143060
  < [4,] 0.7621676 0.963274350 0.4358104 0.7934745
  < [5,] 0.1211588 0.452265898 0.8005272 0.3062947
  ---
  > [1,] 0.45958286 0.246283120 0.6662151 0.2658000
  > [2,] 0.83906910 0.002929016 0.3449861 0.4751930
  > [3,] 0.03770360 0.300615279 0.1399626 0.5143060
  > [4,] 0.76216756 0.963274350 0.4358104 0.7934745
  > [5,] 0.12115883 0.452265898 0.8005272 0.3062947
  104c106
  < [1] 0.0377036 0.3006153 0.1399626 0.5143060
  ---
  > [1] 0.03770360 0.30061528 0.13996262 0.51430601
  254,255c256,257
  < In nax != nay :
  < longer object length is not a multiple of shorter object length
  ---
  > longer object length
  > is not a multiple of shorter object length in: nax != nay
  Running 'distance.R'
  Comparing 'distance.Rout' to 'distance.Rout.save' ...12d11
  < The following object(s) are masked from 'package:stats':
  14c13,16
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  30,34c32,36
  < A 0.0000000 0.000000000 0.0000000 0.0000000
  < B 0.8390691 0.002929016 0.3449861 0.4751930
  < C 0.0377036 0.300615279 0.1399626 0.5143060
  < D 0.7621676 0.963274350 0.4358104 0.7934745
  < E 0.1211588 0.452265898 0.8005272 0.3062947
  ---
  > A 0.00000000 0.000000000 0.0000000 0.0000000
  > B 0.83906910 0.002929016 0.3449861 0.4751930
  > C 0.03770360 0.300615279 0.1399626 0.5143060
  > D 0.76216756 0.963274350 0.4358104 0.7934745
  > E 0.12115883 0.452265898 0.8005272 0.3062947
  37,41c39,43
  < A 0.4595829 0.2462831 0.6662151 0.2658000
  < B 0.0000000 0.0000000 0.0000000 0.0000000
  < C 0.0377036 0.3006153 0.1399626 0.5143060
  < D 0.7621676 0.9632744 0.4358104 0.7934745
  < E 0.1211588 0.4522659 0.8005272 0.3062947
  ---
  > A 0.45958286 0.2462831 0.6662151 0.2658000
  > B 0.00000000 0.0000000 0.0000000 0.0000000
  > C 0.03770360 0.3006153 0.1399626 0.5143060
  > D 0.76216756 0.9632744 0.4358104 0.7934745
  > E 0.12115883 0.4522659 0.8005272 0.3062947
  Running 'distcalls.R'
  Comparing 'distcalls.Rout' to 'distcalls.Rout.save' ...11d10
  < The following object(s) are masked from 'package:stats':
  13c12,15
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  40d41
  < Fager: OK.
  42c43
  < simple matching: OK.
  ---
  > Simple Matching: OK.
  44d44
  < Faith: OK.
  53c53
  < Simpson: OK.
  ---
  > Simson: OK.
  59,60c59,60
  < Chi-squared: OK.
  < Phi-squared: OK.
  ---
  > Chi-Squared: OK.
  > PhiSquared: OK.
  71c71
  < divergence: OK.
  ---
  > Divergence: OK.
  75,79d74
  < Podani: OK.
  < Chord: OK.
  < Geodesic: OK.
  < Whittaker: OK.
  < Hellinger: OK.
  103c98
  < There were 33 warnings (use warnings() to see them)
  ---
  > There were 22 warnings (use warnings() to see them)
  105c100
  < There were 50 or more warnings (use warnings() to see the first 50)
  ---
  > There were 44 warnings (use warnings() to see them)
  115d109
  < Fager: OK.
  117c111
  < simple matching: OK.
  ---
  > Simple Matching: OK.
  119d112
  < Faith: OK.
  128c121
  < Simpson: OK.
  ---
  > Simson: OK.
  134,135c127,128
  < Chi-squared: OK.
  < Phi-squared: OK.
  ---
  > Chi-Squared: OK.
  > PhiSquared: OK.
  146c139
  < divergence: OK.
  ---
  > Divergence: OK.
  150,154d142
  < Podani: OK.
  < Chord: OK.
  < Geodesic: OK.
  < Whittaker: OK.
  < Hellinger: OK.
  166a155,167
  >
  > Attaching package: 'cba'
  >
  >
  > The following object(s) are masked from package:proxy :
  >
  > col.dist,
  > colMeans.dist,
  > colSums.dist,
  > row.dist,
  > rowMeans.dist,
  > rowSums.dist
  >
  Running 'registry.R'
  Comparing 'registry.Rout' to 'registry.Rout.save' ...10d9
  < The following object(s) are masked from 'package:stats':
  12c11,14
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  29d30
  < type character
  30a32
  > type character
  36d37
  < type logical
  37a39
  > type logical
  43d44
  < type character
  44a46
  > type character
  50d51
  < type NA
  51a53
  > type NA
  83d84
  < type NA
  84a86
  > type NA
  100d101
  < type NA
  101a103
  > type NA
  Running 'util.R'
  Comparing 'util.Rout' to 'util.Rout.save' ...10d9
  < The following object(s) are masked from 'package:stats':
  12c11,14
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  20,23c22,25
  < 2 0.8390691
  < 3 0.0377036 0.3006153
  < 4 0.7621676 0.9632744 0.4358104
  < 5 0.1211588 0.4522659 0.8005272 0.3062947
  ---
  > 2 0.83906910
  > 3 0.03770360 0.30061528
  > 4 0.76216756 0.96327435 0.43581036
  > 5 0.12115883 0.45226590 0.80052719 0.30629473
  58,59c60,61
  < 2 0.0377036
  < 3 0.1211588 0.8005272
  ---
  > 2 0.03770360
  > 3 0.12115883 0.80052719
  66,67c68,69
  < C 0.0377036
  < E 0.1211588 0.8005272
  ---
  > C 0.03770360
  > E 0.12115883 0.80052719
  119,120c121,122
  < C 0.0377036
  < E 0.1211588 0.8005272
  ---
  > C 0.03770360
  > E 0.12115883 0.80052719
  123,124c125,126
  < C 0.0377036
  < E 0.1211588 0.8005272
  ---
  > C 0.03770360
  > E 0.12115883 0.80052719
  ** running tests for arch 'x86_64' OK
  Running 'apply.R'
  Comparing 'apply.Rout' to 'apply.Rout.save' ...10d9
  < The following object(s) are masked from 'package:stats':
  12c11,14
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  24,28c26,30
  < [1,] 0.4595829 0.246283120 0.6662151 0.2658000
  < [2,] 0.8390691 0.002929016 0.3449861 0.4751930
  < [3,] 0.0377036 0.300615279 0.1399626 0.5143060
  < [4,] 0.7621676 0.963274350 0.4358104 0.7934745
  < [5,] 0.1211588 0.452265898 0.8005272 0.3062947
  ---
  > [1,] 0.45958286 0.246283120 0.6662151 0.2658000
  > [2,] 0.83906910 0.002929016 0.3449861 0.4751930
  > [3,] 0.03770360 0.300615279 0.1399626 0.5143060
  > [4,] 0.76216756 0.963274350 0.4358104 0.7934745
  > [5,] 0.12115883 0.452265898 0.8005272 0.3062947
  104c106
  < [1] 0.0377036 0.3006153 0.1399626 0.5143060
  ---
  > [1] 0.03770360 0.30061528 0.13996262 0.51430601
  254,255c256,257
  < In nax != nay :
  < longer object length is not a multiple of shorter object length
  ---
  > longer object length
  > is not a multiple of shorter object length in: nax != nay
  Running 'distance.R'
  Comparing 'distance.Rout' to 'distance.Rout.save' ...12d11
  < The following object(s) are masked from 'package:stats':
  14c13,16
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  30,34c32,36
  < A 0.0000000 0.000000000 0.0000000 0.0000000
  < B 0.8390691 0.002929016 0.3449861 0.4751930
  < C 0.0377036 0.300615279 0.1399626 0.5143060
  < D 0.7621676 0.963274350 0.4358104 0.7934745
  < E 0.1211588 0.452265898 0.8005272 0.3062947
  ---
  > A 0.00000000 0.000000000 0.0000000 0.0000000
  > B 0.83906910 0.002929016 0.3449861 0.4751930
  > C 0.03770360 0.300615279 0.1399626 0.5143060
  > D 0.76216756 0.963274350 0.4358104 0.7934745
  > E 0.12115883 0.452265898 0.8005272 0.3062947
  37,41c39,43
  < A 0.4595829 0.2462831 0.6662151 0.2658000
  < B 0.0000000 0.0000000 0.0000000 0.0000000
  < C 0.0377036 0.3006153 0.1399626 0.5143060
  < D 0.7621676 0.9632744 0.4358104 0.7934745
  < E 0.1211588 0.4522659 0.8005272 0.3062947
  ---
  > A 0.45958286 0.2462831 0.6662151 0.2658000
  > B 0.00000000 0.0000000 0.0000000 0.0000000
  > C 0.03770360 0.3006153 0.1399626 0.5143060
  > D 0.76216756 0.9632744 0.4358104 0.7934745
  > E 0.12115883 0.4522659 0.8005272 0.3062947
  Running 'distcalls.R'
  Comparing 'distcalls.Rout' to 'distcalls.Rout.save' ...11d10
  < The following object(s) are masked from 'package:stats':
  13c12,15
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  40d41
  < Fager: OK.
  42c43
  < simple matching: OK.
  ---
  > Simple Matching: OK.
  44d44
  < Faith: OK.
  53c53
  < Simpson: OK.
  ---
  > Simson: OK.
  59,60c59,60
  < Chi-squared: OK.
  < Phi-squared: OK.
  ---
  > Chi-Squared: OK.
  > PhiSquared: OK.
  71c71
  < divergence: OK.
  ---
  > Divergence: OK.
  75,79d74
  < Podani: OK.
  < Chord: OK.
  < Geodesic: OK.
  < Whittaker: OK.
  < Hellinger: OK.
  103c98
  < There were 27 warnings (use warnings() to see them)
  ---
  > There were 22 warnings (use warnings() to see them)
  105c100
  < There were 50 or more warnings (use warnings() to see the first 50)
  ---
  > There were 44 warnings (use warnings() to see them)
  115d109
  < Fager: OK.
  117c111
  < simple matching: OK.
  ---
  > Simple Matching: OK.
  119d112
  < Faith: OK.
  128c121
  < Simpson: OK.
  ---
  > Simson: OK.
  134,135c127,128
  < Chi-squared: OK.
  < Phi-squared: OK.
  ---
  > Chi-Squared: OK.
  > PhiSquared: OK.
  146c139
  < divergence: OK.
  ---
  > Divergence: OK.
  150,154d142
  < Podani: OK.
  < Chord: OK.
  < Geodesic: OK.
  < Whittaker: OK.
  < Hellinger: OK.
  166a155,167
  >
  > Attaching package: 'cba'
  >
  >
  > The following object(s) are masked from package:proxy :
  >
  > col.dist,
  > colMeans.dist,
  > colSums.dist,
  > row.dist,
  > rowMeans.dist,
  > rowSums.dist
  >
  Running 'registry.R'
  Comparing 'registry.Rout' to 'registry.Rout.save' ...10d9
  < The following object(s) are masked from 'package:stats':
  12c11,14
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  29d30
  < type character
  30a32
  > type character
  36d37
  < type logical
  37a39
  > type logical
  43d44
  < type character
  44a46
  > type character
  50d51
  < type NA
  51a53
  > type NA
  83d84
  < type NA
  84a86
  > type NA
  100d101
  < type NA
  101a103
  > type NA
  Running 'util.R'
  Comparing 'util.Rout' to 'util.Rout.save' ...10d9
  < The following object(s) are masked from 'package:stats':
  12c11,14
  < as.dist, dist
  ---
  > The following object(s) are masked from package:stats :
  >
  > as.dist,
  > dist
  20,23c22,25
  < 2 0.8390691
  < 3 0.0377036 0.3006153
  < 4 0.7621676 0.9632744 0.4358104
  < 5 0.1211588 0.4522659 0.8005272 0.3062947
  ---
  > 2 0.83906910
  > 3 0.03770360 0.30061528
  > 4 0.76216756 0.96327435 0.43581036
  > 5 0.12115883 0.45226590 0.80052719 0.30629473
  58,59c60,61
  < 2 0.0377036
  < 3 0.1211588 0.8005272
  ---
  > 2 0.03770360
  > 3 0.12115883 0.80052719
  66,67c68,69
  < C 0.0377036
  < E 0.1211588 0.8005272
  ---
  > C 0.03770360
  > E 0.12115883 0.80052719
  119,120c121,122
  < C 0.0377036
  < E 0.1211588 0.8005272
  ---
  > C 0.03770360
  > E 0.12115883 0.80052719
  123,124c125,126
  < C 0.0377036
  < E 0.1211588 0.8005272
  ---
  > C 0.03770360
  > E 0.12115883 0.80052719
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in 'inst/doc' ... OK
• checking running R code from vignettes ... OK
• checking re-building of vignettes ... OK
• checking PDF version of manual ... OK
• elapsed time (check, wall clock): 0:42