* using log directory 'd:/Rcompile/CRANpkg/local/2.13/proxy.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* 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 whether package 'proxy' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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 'x64'
** 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 'x64' ... 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 24 warnings (use warnings() to see them)
---
> There were 22 warnings (use warnings() to see them)
105c100
< There were 49 warnings (use warnings() to see them)
---
> 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 'x64' 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 20 warnings (use warnings() to see them)
---
> There were 22 warnings (use warnings() to see them)
105c100
< There were 40 warnings (use warnings() to see them)
---
> 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