cfa2 - Configuration Frequency Analysis with Design Matrix - check results
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cfa2

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Package R docs

Version: 0.1.2
Result: OK
Check time: 2018-01-24 14:05
* using log directory ''
* using R Under development (unstable) (2018-01-24 r74156)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: ISO8859-1
* using option '--as-cran'
* checking for file 'cfa2/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'cfa2' version '0.1.2'
* package encoding: UTF-8
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking serialized R objects in the sources ... OK
* checking whether package 'cfa2' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
* checking top-level files ... NOTE
Non-standard file/directory found at top level:
'files'
* checking for left-over 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Package in Depends field not imported from: 'cfa'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
cfa2: no visible global function definition for 'aggregate'
cfa2: no visible global function definition for 'pnorm'
cfa2: no visible global function definition for 'pchisq'
cfa2: no visible global function definition for 'qnorm'
cfa2: no visible global function definition for 'mcfa'
scfa2: no visible global function definition for 'aggregate'
scfa2: no visible global function definition for 'glm.fit'
scfa2: no visible global function definition for 'poisson'
Undefined global functions or variables:
aggregate glm.fit mcfa pchisq pnorm poisson qnorm
Consider adding
importFrom("stats", "aggregate", "glm.fit", "pchisq", "pnorm",
"poisson", "qnorm")
to your NAMESPACE file.
* checking Rd files ... NOTE
prepare_Rd: cfa2-package.Rd:20-22: Dropping empty section \references
prepare_Rd: cfa2.Rd:88-89: Dropping empty section \note
* checking Rd metadata ... OK
* checking Rd line widths ... NOTE
Rd file 'cfa2.Rd':
\examples lines wider than 100 characters:
X <- matrix(c(1,1,1,1,1,1,1,1, 1,1,1,1,-1,-1,-1,-1, 1,1,-1,-1,1,1,-1,-1,1,-1,1,-1,1,-1,1, -1), ncol=4)
X <- matrix(c(1,1,1,1,1,1,1,1,1,1,1,1,-1,-1,-1,-1,1,1,-1,-1,1,1,-1,-1,1,-1,1,-1,1,-1,1,-1,1,1,-1,-1,-1,-1,-1,-1,1,-1,1,-1,-1,1, ... [TRUNCATED]
X <- matrix(c(1,1,1,1,1,1,1,1,1,1,1,1,-1,-1,-1,-1,1,1,-1,-1,1,1,-1,-1,1,-1,1,-1,1,-1,1,-1,1,1,-1,-1,-1,-1,-1,-1,1,-1,1,-1,-1,1, ... [TRUNCATED]
mode5 <- cfa2(X, conf_cols=2:4, ofreq, binom.test=TRUE, exact.binom.test = TRUE, exact.binom.limit = 21, sorton="label", sort.d ... [TRUNCATED]
mode6 <- cfa2(X1, conf_cols=2:3, ofreq1, binom.test=TRUE, sorton="label", sort.descending=TRUE, alpha=0.05)
X2 <- matrix(c(1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1, 1,1,1,1,1,1,1,1,-1,-1,-1,-1,-1,-1,-1,-1, 1,1,1,1,-1,-1,-1,-1,1,1,1,1,-1,-1,-1,- ... [TRUNCATED]
mode66 <- cfa2(X2, conf_cols=2:5, ofreq2, binom.test=TRUE, sorton="label", sort.descending=TRUE, bonferroni=FALSE, alpha=0.05)

These lines will be truncated in the PDF manual.
* 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 ... OK
* checking PDF version of manual ... OK
* DONE

Status: 6 NOTEs
See
'/00check.log'
for details.



Installation log: 00install.out

Distribution log

SVN checkout/GIT clone log


Build log for Windows 7 (R 3.0.x)

(cfa2 0.1.2)
* installing to library 'z:/rforge/Rlib/win7-3.0'
ERROR: dependency 'cfa' is not available for package 'cfa2'
* removing 'z:/rforge/Rlib/win7-3.0/cfa2'