GeneticsDesign 1.5.0
Weiliang Qiu
| Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GeneticsDesign | | Last Changed Rev: 29703 / Revision: 30951 | | Last Changed Date: 2008-01-25 12:40:16 -0800 (Fri, 25 Jan 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | ERROR | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | ERROR | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | ERROR | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | ERROR | OK |
| pelham | Mac OS X Leopard (10.5.1) / i386 | OK | [ ERROR ] | OK |
* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.2-bioc/meat/GeneticsDesign.Rcheck'
* using R version 2.7.0 beta (2008-04-07 r45159)
* using session charset: ASCII
* checking for file 'GeneticsDesign/DESCRIPTION' ... OK
* this is package 'GeneticsDesign' version '1.5.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GeneticsDesign' can be installed ... 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 name space can be loaded with stated dependencies ... 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 cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating GeneticsDesign-Ex.R ... OK
* checking examples ... ERROR
Running examples in 'GeneticsDesign-Ex.R' failed.
The error most likely occurred in:
> ### * power.casectlr
>
> flush(stderr()); flush(stdout())
>
> ### Name: power.casectrl
> ### Title: Power for case-control genetics study
> ### Aliases: power.casectrl
> ### Keywords: design
>
> ### ** Examples
>
>
> # single calc
> power.casectrl(p=0.1, N=50, gamma=1.1, kp=.1, alpha=5e-2, minh='r')
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
>
> # for a range of sample sizes
> power.casectrl(p=0.1, N=c(25,50,100,200,500), gamma=1.1, kp=.1,
+ alpha=5e-2, minh='r')
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
>
> # create a power table
> fun <- function(p)
+ power.casectrl(p=p, N=seq(100,1000,by=100), gamma=1.1, kp=.1,
+ alpha=5e-2, minh='recessive')
>
> m <- sapply( X=seq(0.1,0.9, by=0.1), fun )
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
Warning: 'power.casectrl' is deprecated.
Use 'GPC', 'GeneticPower.Quantitative.Factor', or 'GeneticPower.Quantitative.Numeric' instead.
See help("Deprecated")
> colnames(m) <- seq(0.1,0.9, by=0.1)
Error in `colnames<-`(`*tmp*`, value = c(0.1, 0.2, 0.3, 0.4, 0.5, 0.6, :
attempt to set colnames on object with less than two dimensions
Execution halted