Check results for 'sca'

using R Under development (unstable) (2012-02-06 r58287)
using platform: i686-pc-linux-gnu (32-bit)
using session charset: UTF-8
checking for file ‘sca/DESCRIPTION’ ... OK
this is package ‘sca’ version ‘0.8-7’
checking package dependencies ... OK
checking if this is a source package ... OK
checking if there is a namespace ... NOTE
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.
checking for executable files ... OK
checking whether package ‘sca’ 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 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 ‘sca/R/aaa.R’:
.First.lib calls:
require(stats)

Package startup functions should not change the search path.
See section ‘Good practice’ in ?.onAttach.
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 ... WARNING
‘library’ or ‘require’ call not declared from: ‘MASS’
checking contents of ‘data’ directory ... OK
checking data for non-ASCII characters ... OK
checking data for ASCII and uncompressed saves ... OK
checking examples ... ERROR
Running examples in ‘sca-Ex.R’ failed
The error most likely occurred in:

> ### Name: sca
> ### Title: Simple Component Analysis - Interactively
> ### Aliases: sca print.simpcomp
> ### Keywords: multivariate
>
> ### ** Examples
>
> data(pitpropC)
> sc.pitp <- sca(pitpropC, interactive=FALSE)
> sc.pitp
------------------------------------------------------------
Simple Component Analysis
------------------------------------------------------------
Optimality criterion : corrected sum of variances
Clustering procedure : median linkage
Within-block differences : TRUE
Possible invertion of signs : FALSE
Number of block-components : 6
Number of diff.-components : 0
------------------------------------------------------------
Simple matrix:
B1 B2 B3 B4 B5 B6
topdiam 1 0 0 0 0 0
length 1 0 0 0 0 0
moist 0 1 0 0 0 0
testsg 0 1 0 0 0 0
ovensg 0 0 1 0 0 0
ringtop 1 0 0 0 0 0
ringbut 1 0 0 0 0 0
bowmax 1 0 0 0 0 0
bowdist 1 0 0 0 0 0
whorls 1 0 0 0 0 0
clear 0 0 0 1 0 0
knots 0 0 0 0 1 0
diaknot 0 0 0 0 0 1
------------------------------------------------------------
Variance principal components:
32.45 % 18.29 % 14.45 % 8.53 % 7.00 % 6.27 %
Variance simple components :
30.16 % 14.48 % 7.69 % 7.69 % 7.69 % 7.69 %
------------------------------------------------------------
Extracted variability PCA: 87.00 %
Extracted variability SCA: 72.82 %
Optimality SCA : 83.70 %
------------------------------------------------------------
Correlations simple components:
B1 B2 B3 B4 B5 B6
B1 1.00 0.20 0.08 -0.03 -0.21 -0.20
B2 0.20 1.00 0.04 0.13 0.20 0.07
B3 0.08 0.04 1.00 -0.09 -0.14 -0.21
B4 -0.03 0.13 -0.09 1.00 0.03 0.01
B5 -0.21 0.20 -0.14 0.03 1.00 0.18
B6 -0.20 0.07 -0.21 0.01 0.18 1.00
------------------------------------------------------------
Max (abs) correlation: 0.21 ( B1 - B5 )
------------------------------------------------------------
> ## to see it's low-level components:
> str(sc.pitp)
List of 10
$ simplemat : num [1:13, 1:6] 1 1 0 0 0 1 1 1 1 1 ...
..- attr(*, "dimnames")=List of 2
.. ..$ : chr [1:13] "topdiam" "length" "moist" "testsg" ...
.. ..$ : chr [1:6] "B1" "B2" "B3" "B4" ...
$ loadings : num [1:13, 1:6] 0.378 0.378 0 0 0 ...
..- attr(*, "dimnames")=List of 2
.. ..$ : chr [1:13] "topdiam" "length" "moist" "testsg" ...
.. ..$ : chr [1:6] "B1" "B2" "B3" "B4" ...
$ allcrit :List of 7
..$ varpc : num [1:6] 0.3245 0.1829 0.1445 0.0853 0.07 ...
..$ varsc : Named num [1:6] 0.3016 0.1448 0.0769 0.0769 0.0769 ...
.. ..- attr(*, "names")= chr [1:6] "B1" "B2" "B3" "B4" ...
..$ cumpc : num 0.87
..$ cumsc : num 0.728
..$ opt : num 0.837
..$ corsc : num [1:6, 1:6] 1 0.1987 0.0792 -0.0309 -0.2128 ...
.. ..- attr(*, "dimnames")=List of 2
.. .. ..$ : chr [1:6] "B1" "B2" "B3" "B4" ...
.. .. ..$ : chr [1:6] "B1" "B2" "B3" "B4" ...
..$ maxcor:List of 3
.. ..$ row: chr "B1"
.. ..$ col: chr "B5"
.. ..$ val: num 0.213
$ nblock : num 6
$ ndiff : num 0
$ criterion : chr "csv"
$ cluster : chr "median"
$ withinblock: logi TRUE
$ invertsigns: logi FALSE
$ vardata : num [1:13, 1:13] 1 0.954 0.364 0.342 -0.129 0.313 0.496 0.424 0.592 0.545 ...
..- attr(*, "dimnames")=List of 2
.. ..$ : chr [1:13] "topdiam" "length" "moist" "testsg" ...
.. ..$ : chr [1:13] "topdiam" "length" "moist" "testsg" ...
- attr(*, "class")= chr "simpcomp"
>
> ## Let `X' be a matrix containing some data set whose rows correspond to
> ## subjects and whose columns correspond to variables. For example:
>
> library(MASS)
Error in library(MASS) : there is no package called ‘MASS’
Execution halted