我从来没有这样做过,但是想开发适合家庭使用的R包装:
例如,以下是我的功能和数据:
# random DNA function
randDNA = function(n){
paste(sample(c("A", "C", "T", "G"), n, replace = TRUE), collapse = "")
}
# DNA to RNA function
dna2rna <- function(inputStr) {
if (!is.character(inputStr))
stop("need character input")
is = toupper(inputStr)
chartr("T", "U", is)
}
# complementary sequence function
compSeq <- function(inputStr){
chartr("ACTG", "TGAC", inputStr)
}
# example data
dnaseq1 <- c("ATTGTATCTGGGTATTTCCCTTAATTGGGGCCTTT")
dnaseq2 <- c("TGGGGTAAACCCGGTTTAAAATATATATATTTTT")
myseqdata <- data.frame(dnaseq1, dnaseq2)
save(myseqdata, file = "myseqdata.RData")
我尝试使用utils包来开发框架,但遇到了问题:
require(utils)
package.skeleton(list = c("randDNA","dna2rna", "compSeq", "myseqdata"),
name = "dnatool",environment = .GlobalEnv, path = "c:", force = FALSE)
Creating directories ...
Creating DESCRIPTION ...
Creating Read-and-delete-me ...
Saving functions and data ...
Making help files ...
Error in .find.package(pkgName, lib.loc, verbose = verbose) :
there is no package called 'dnatool'
Error in package.skeleton(list = c("randDNA", "dna2rna", "compSeq", "myseqdata"), :
Error in .find.package(pkgName, lib.loc, verbose = verbose) :
there is no package called 'dnatool'
我对我收到此错误的原因有疑问。当我查看C:\ dnatool时,我可以看到使用data和r函数创建的文件夹。
现在我想编译以使其成为包。在我阅读说明时,我使用命令提示符打包它:我使用的是Windows 7.
c:\> R CMD build dnatool
显然不起作用。这是由于上述问题吗?我应该走哪条路?哪里有R exe或C:或c:\ dnatool
我将非常感谢你的帮助,如果你能以R“外行”的方式帮助......谢谢......
编辑: 我从R版本2.12.2下载了Rtools Rtools212.exe: http://www.murdoch-sutherland.com/Rtools/ 这些工具安装在C:\ Rtools
中Directory of c:\Rtools
09/18/2011 08:08 AM <DIR> .
09/18/2011 08:08 AM <DIR> ..
09/18/2011 08:07 AM <DIR> bin
03/31/2010 09:50 AM 18,347 COPYING
09/18/2011 08:08 AM <DIR> MinGW
09/18/2011 08:09 AM <DIR> MinGW64
10/04/2010 10:21 AM 1,836 README.txt
10/07/2010 08:26 AM 3,676 Rtools.txt
09/18/2011 08:10 AM 728,889 unins000.dat
09/18/2011 08:07 AM 1,182,143 unins000.exe
5 File(s) 1,934,891 bytes
5 Dir(s) 36,454,875,136 bytes free
我的包的骨架在C:\ dnatool:
Directory of c:\dnatool
09/17/2011 11:14 PM <DIR> .
09/17/2011 11:14 PM <DIR> ..
09/17/2011 11:14 PM <DIR> data
09/17/2011 11:14 PM 304 DESCRIPTION
09/17/2011 11:14 PM <DIR> man
09/17/2011 11:14 PM <DIR> R
09/17/2011 11:14 PM 385 Read-and-delete-me
2 File(s) 689 bytes
5 Dir(s) 36,455,153,664 bytes free
我的R程序是C:\ R ....
我的困惑在于以下说明:应该在哪里执行它们?我相信命令提示。在哪个目录下?
* Run R CMD build to build the package tarball.
* Run R CMD check to check the package tarball.
************ Edits2:部分解决方案但出现新错误*************************** *** 第一轮问题已经通过路径的建议得到了解决。我必须手动将路径更改为:
C:\Rtools\bin;C:\Rtools\perl\bin;C:\Rtools\MinGW\bin;
C:\Program files\R\R-2.12.2\bin\x64;
我将骨架存储到新目录中。通过在命令提示符中运行以下命令:
C:\Users\Owner\Documents\rpackages> Rcmd INSTALL --build dnatool
* installing to library 'C:/PROGRA~1/R/R-212~1.2/library'
* installing *source* package 'dnatool' ...
** R
** data
** preparing package for lazy loading
** help
Warning: C:/Users/Owner/Documents/rpackages/dnatool/man/dnatool-package.Rd:34: A
ll text must be in a section
Warning: C:/Users/Owner/Documents/rpackages/dnatool/man/dnatool-package.Rd:35: A
ll text must be in a section
*** installing help indices
Error in Rd_info(db[[i]]) : Rd files must have a non-empty \title.
See chapter 'Writing R documentation' in manual 'Writing R Extensions'.
* removing 'C:/PROGRA~1/R/R-212~1.2/library/dnatool
我没有成功创建包,看到上面窗口中的错误。这是什么意思。我添加了文件dnatool-package的相关信息第34行和第35行 .Rd ...帮助......谢谢......
答案 0 :(得分:1)
我自己回答了我的问题,所以如果事实不是这样的话,它仍将无法回答。根据这里的建议,通过设置以下内容来改变路径,解决了问题:
C:\Rtools\bin;C:\Rtools\perl\bin;C:\Rtools\MinGW\bin;
C:\Program files\R\R-2.12.2\bin\x64;
I stored the skeleton to new directory.
在命令提示符下运行以下命令:
C:\Users\Owner\Documents\rpackages> Rcmd INSTALL --build dnatool