[R] fail in adding library in new version.

Henrik Bengtsson hb at maths.lth.se
Wed Jul 13 08:48:46 CEST 2005 

I've prepared a Windows batch file that gives you a fresh Windows 
commando prompt setup for R. You can download it from:

   http://www.maths.lth.se/help/R/RCMDprompt.bat

It has instructions how and where to download necessary software such as 
'hhc'. The script setup the PATH assuming default installation of 
everything so with some luck you can build R packages right away. If 
not, follow the instructions and modify some of the variables.

/Henrik


On 7/13/05, Gabor Grothendieck <ggrothendieck at gmail.com> wrote:
 > If you start up a fresh batch console and run
 >   hhc
 > do you get the usage message?  If not you still have a path problem.
 > You only need hhc.exe so just copy that file into any directory on your
 > path -- issue the command:
 >
 > path
 >
 > to find out which directories you can copy it into (and also post the
 > output of the path command if you still have problem) -- with this
 > approach you won't have to set your path to the
 > HTML Help Workshop.
 >
 > On 7/12/05, Ivy_Li <Ivy_Li at smics.com> wrote:
 > > Dear All,
 > >        I have downloaded the htmlhelp.exe from InterNet. Install it 
into the path "C:\Program Files\HTML Help Workshop\". I add this path 
into the "Control Panel -> System -> Advanced -> Environment Variables 
-> Path -> Variable".
 > >        But it still exist error.
 > >        ---------- Making package example ------------
 > >          adding build stamp to DESCRIPTION
 > >          installing R files
 > >          installing data files
 > >          installing man source files
 > >          installing indices
 > >          not zipping data
 > >          installing help
 > >         >>> Building/Updating help pages for package 'example'
 > >             Formats: text html latex example chm
 > >          d                                 text    html    latex 
example
 > >          e                                 text    html    latex 
example
 > >          f                                 text    html    latex 
example
 > >          g                                 text    html    latex 
example
 > >        hhc: not found
 > >        cp: cannot stat 
`D:/PROGRA~1/R/rw2011/example/chm/example.chm': No such file or
 > >        directory
 > >        make[1]: *** [chm-example] Error 1
 > >        make: *** [pkg-example] Error 2
 > >        *** Installation of example failed ***
 > >
 > >        Removing 'D:/PROGRA~1/R/rw2011/library/example'
 > >        Restoring previous 'D:/PROGRA~1/R/rw2011/library/example'
 > >
 > > I don't know why it can not find the "hhc" file.
 > > Please tell me which step is wrong.
 > > Thank you for helping me!
 > > ^_^
 > >
 > > -----åŽŸå§‹é‚®ä»¶-----
 > > å‘ä»¶äºº: Gabor Grothendieck [mailto:ggrothendieck at gmail.com]
 > > å‘é€æ—¶é—´: 2005å¹´7æœˆ13æ—¥ 9:32
 > > æ”¶ä»¶äºº: Ivy_Li
 > > æŠ„é€: Duncan Murdoch; r-help at stat.math.ethz.ch
 > > ä¸»é¢˜: Re: ç­”å¤: [R] fail in adding library in new version.
 > >
 > >
 > > hhc.exe is the Microsoft help compiler.  You have to download it 
and put
 > > it somewhere in your path.
 > >
 > > On 7/12/05, Ivy_Li <Ivy_Li at smics.com> wrote:
 > > > Dear all,
 > > > I really appreciate your help. I think I have a little 
advancement. ^_^
 > > > Now I use the package.skeleton() function to create a template. I 
type:
 > > >        f <- function(x,y) x+y
 > > >        g <- function(x,y) x-y
 > > >        d <- data.frame(a=1, b=2)
 > > >        e <- rnorm(1000)
 > > >        package.skeleton(list=c("f","g","d","e"), name="example")
 > > >
 > > > in R. I know it will create a folder named "example" in the path 
of "\R\rw2011\" I opened this folder, its format is similar as other 
library. Then I modify it "DESCRIPTION" file:
 > > >        Package: example
 > > >        Version: 1.0-1
 > > >        Date: 2005-07-09
 > > >        Title: My first function
 > > >        Author: Ivy <Ivy_Li at smics.com>
 > > >        Maintainer: Ivy <Ivy_Li at smics.com>
 > > >        Description: simple sum and subtract
 > > >        License: GPL version 2 or later
 > > >        Depends: R (>= 1.9), stats, graphics, utils
 > > >
 > > > I don't whether I should modify other "README" file.
 > > > When I enter the Dos environment, at first, into the D:\>, I type 
the following code:
 > > >        cd Program Files\R\rw2011\
 > > >        bin\R CMD install /example
 > > >
 > > > Well, there appeared error:
 > > >        ---------- Making package example ------------
 > > >          adding build stamp to DESCRIPTION
 > > >          installing R files
 > > >          installing data files
 > > >          installing man source files
 > > >          installing indices
 > > >          not zipping data
 > > >          installing help
 > > >         >>> Building/Updating help pages for package 'example'
 > > >             Formats: text html latex example chm
 > > >          d                                 text    html    latex 
   example chm
 > > >          e                                 text    html    latex 
   example chm
 > > >          f                                 text    html    latex 
   example chm
 > > >             missing link(s):  ~~fun~~
 > > >          g                                 text    html    latex 
   example chm
 > > >             missing link(s):  ~~fun~~
 > > >        hhc: not found
 > > >        cp: cannot stat 
`D:/PROGRA~1/R/rw2011/example/chm/example.chm': No such file or
 > > >        directory
 > > >        make[1]: *** [chm-example] Error 1
 > > >        make: *** [pkg-example] Error 2
 > > >        *** Installation of example failed ***
 > > >
 > > >        Removing 'D:/PROGRA~1/R/rw2011/library/example'
 > > >
 > > > That's it. I have to consult every R expert. Please help to solve 
this issue. Thank you very much!
 > > >
 > > >
 > > >
 > > >
 > > > -----åŽŸå§‹é‚®ä»¶-----
 > > > å‘ä»¶äºº: Duncan Murdoch [mailto:murdoch at stats.uwo.ca]
 > > > å‘é€æ—¶é—´: 2005å¹´7æœˆ8æ—¥ 19:34
 > > > æ”¶ä»¶äºº: Ivy_Li
 > > > æŠ„é€: r-help at stat.math.ethz.ch
 > > > ä¸»é¢˜: Re: [R] fail in adding library in new version.
 > > >
 > > >
 > > > Ivy_Li wrote:
 > > > > Dear all,
 > > > >       I really appreciate your help. I think I have a little 
advancement. ^_^
 > > > >
 > > > >       When I enter the Dos environment, at first, into the 
D:\>, I type the following code:
 > > > > cd Program Files\R\rw2011\
 > > > > bin\R CMD install /example
 > > > >
 > > > > "example" is in the d:\, which include the R folder and 
"DESCRIPTION" file, But I wrote nothing in the "DESCRIPTION" file. 
Actually, I don't know what I should write in it.
 > > >
 > > > Read the R Extensions manual for a detailed description.  You can use
 > > > the package.skeleton() function to create a template, but you need to
 > > > edit it to make it acceptable.
 > > > >
 > > > > Well, there are still aother error:
 > > > >
 > > > >       ---------- Making package example ------------
 > > > >         adding build stamp to DESCRIPTION
 > > > >       error happened.read_description(dfile) : file 
'D:/example/DESCRIPTION' is not in valid DCF format
 > > >
 > > > That's complaining about your bad DESCRIPTION file.
 > > >
 > > > Duncan Murdoch
 > > > >       Stop execute
 > > > >       make[2]: *** [frontmatter] Error 1
 > > > >       make[1]: *** [all] Error 2
 > > > >       make: *** [pkg-example] Error 2
 > > > >       *** Installation of example failed ***
 > > > >       Removing 'D:/PROGRA~1/R/rw2011/library/example'
 > > > >
 > > > > Please tell me which step is wrong?
 > > > > Thanks a lot!
 > > > >
 > > > > BG
 > > > > Ivy_Li
 > > > >
 > > > >
 > > > > -----åŽŸå§‹é‚®ä»¶-----
 > > > > å‘ä»¶äºº: Gabor Grothendieck [mailto:ggrothendieck at gmail.com]
 > > > > å‘é€æ—¶é—´: 2005å¹´7æœˆ7æ—¥ 20:57
 > > > > æ”¶ä»¶äºº: Uwe Ligges
 > > > > æŠ„é€: Ivy_Li; r-help at stat.math.ethz.ch
 > > > > ä¸»é¢˜: Re: ç­”å¤: ç­”å¤: [R] fail in adding library in new version.
 > > > >
 > > > >
 > > > > On 7/7/05, Uwe Ligges <ligges at statistik.uni-dortmund.de> wrote:
 > > > >
 > > > >>Gabor Grothendieck wrote:
 > > > >>
 > > > >>
 > > > >>>On 7/7/05, Uwe Ligges <ligges at statistik.uni-dortmund.de> wrote:
 > > > >>>
 > > > >>>
 > > > >>>>Ivy_Li wrote:
 > > > >>>>
 > > > >>>>
 > > > >>>>
 > > > >>>>>Dear all,
 > > > >>>>>     I have done every step as the previous mail.
 > > > >>>>>1. unpack tools.zip into c:\cygwin
 > > > >>>>>2. install Active perl in c:\Perl
 > > > >>>>>3. install the mingw32 in c:\mingwin
 > > > >>>>>4. add "c:\cygwin; c:\mingwin\bin" in "Control Panel -> 
System -> Advanced -> Environment Variables -> Path -> Variable" , and 
they are in the beginning of the "Path"
 > > > >>>>
 > > > >>>>                  ^
 > > > >>>>such blanks are not allowed in the PATH variable
 > > > >>>>
 > > > >>>>
 > > > >>>>
 > > > >>>>
 > > > >>>>
 > > > >>>>>     Because I install R in the D drive, so I set a fold 
"MyRpackages" in the same drive. Into the "MyRpackages" folder I write a 
R library named "example", include "DESCRIPTION" file and "R" folder. In 
the "R" folder, the "example" file just content very simple code as the 
previous mail said.
 > > > >>>>>      So in the Dos environment, at first, into the D:\>, I 
type the following code:
 > > > >>>>>cd Program Files\R\rw2011\
 > > > >>>>
 > > > >>>>MyRpackages does not need to be here.
 > > > >>>>
 > > > >>>>
 > > > >>>>
 > > > >>>>>bin\R CMD install /MyRpackages/example
 > > > >>>>
 > > > >>>>The first slash in "/MyRPackages" sugests that this is a top 
level
 > > > >>>>directory, which does not exist.
 > > > >>>>Even better, cd to MyRpackages, add R's bin dir to your path 
variable,
 > > > >>>>and simply say:
 > > > >>>>
 > > > >>>>R CMD INSTALL example
 > > > >>>
 > > > >>>
 > > > >>>Another possibility is to put Rcmd.bat from the batch file 
collection
 > > > >>>
 > > > >>>   http://cran.r-project.org/contrib/extra/batchfiles/
 > > > >>>
 > > > >>>in your path.  It will use the registry to find R so you won't 
have
 > > > >>>to modify your path (nor would you have to remodify it every 
time you
 > > > >>>install a new version of R which is what you would otherwise 
have to do):
 > > > >>>
 > > > >>>cd \MyPackages
 > > > >>>Rcmd install example
 > > > >>
 > > > >>
 > > > >>Just for the records:
 > > > >>
 > > > >>1. "cd \MyPackages" won't work, as I have already explained above.
 > > > >
 > > > >
 > > > > If MyPackages is not a top level directory in the current drive
 > > > > then it will not work. Otherwise it does work.
 > > > >
 > > > >
 > > > >>2. I do *not* recommend this way, in particular I find it 
misleading to
 > > > >>provide these batch files on CRAN.
 > > > >>
 > > > >
 > > > >
 > > > > The alternative, at least as discussed in your post, is more work
 > > > > since one will then have to change one's path every time one
 > > > > reinstalls R.  This is just needless extra work and is error 
prone.  If you
 > > > > forget to do it then you will be accessing the bin directory of the
 > > > > wrong version of R.
 > > > >
 > > > >
 > > > >>>>>     There are some error:
 > > > >>>>>'make' is neither internal or external command, nor 
executable operation or batch file
 > > > >>>>>*** installation of example failed ***
 > > > >>>>
 > > > >>>>Well, make.exe is not find in your path. Please check whether 
the file
 > > > >>>>exists and the path has been added.
 > > > >>>>
 > > > >>>>Uwe Ligges
 > > > >>>>
 > > > >>>>
 > > > >>>>
 > > > >>>>
 > > > >>>>>Removing 'D:/PROGRA~1/R/rw2011/library/example'
 > > > >>>>>
 > > > >>>>>I think I have closed to success. heehee~~~~~
 > > > >>>>>Thank you for your help.
 > > > >>>>>I still need you and others help. Thank you very much!
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>-----åŽŸå§‹é‚®ä»¶-----
 > > > >>>>>å‘ä»¶äºº: Gabor Grothendieck [mailto:ggrothendieck at gmail.com]
 > > > >>>>>å‘é€æ—¶é—´: 2005å¹´6æœˆ30æ—¥ 19:16
 > > > >>>>>æ”¶ä»¶äºº: Ivy_Li
 > > > >>>>>æŠ„é€: r-help at stat.math.ethz.ch
 > > > >>>>>ä¸»é¢˜: Re: ç­”å¤: [R] fail in adding library in new version.
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>On 6/30/05, Ivy_Li <Ivy_Li at smics.com> wrote:
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>>Dear Gabor,
 > > > >>>>>>     Thank your for helping me so much!
 > > > >>>>>>     I have loaded R the newest version 2.1.1. Then I setup 
it in the path of D:\program files\R\
 > > > >>>>>>1. unpack tools.zip into c:\cygwin
 > > > >>>>>>2. install Active perl in c:\Perl
 > > > >>>>>>3. install the mingw32 in c:\mingwin
 > > > >>>>>>4. add "c:\cygwin; c:\mingwin\bin" in "Control Panel -> 
System -> Advanced -> Environment Variables -> Path -> Variable" (In 
your previous mail, you said "put these at the beginning of the path", I 
don't understand what is your meaning. Which path?)
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>If in the console you enter the command:
 > > > >>>>>
 > > > >>>>>path
 > > > >>>>>
 > > > >>>>>then it will display a semicolon separated list of folders. 
  You want the folder
 > > > >>>>>that contains the tools to be at the beginning so that you 
eliminate
 > > > >>>>>the possibility
 > > > >>>>>of finding a different program of the same name first in a 
folder that comes
 > > > >>>>>prior to the one where the tools are stored.
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>>5. I tried an library example. I set a new folder named 
"example" in the "c:\MyRpackages\". And In the "example" folder, it 
contain an "DESCRIPTION" file and "R" folder. in "R" folder contain a 
"example" file. I just write very simple script in it:
 > > > >>>>>>a<-2; b<-3;sum <- sum(a,b); print(paste(a,"+",b,"=",sum))
 > > > >>>>>>
 > > > >>>>>>6. I opened the DOS environment. Into the "D:\>"  Type the 
following code:
 > > > >>>>>>cd \Program Files\R\rw2010
 > > > >>>>>>But I don't understand the second line you writed in your 
previous mail: "bin\R cmd install /MyRPackages/example"
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>I was assuming that MyRPackages and R are on the same disk. 
  If they are not
 > > > >>>>>then you need to specify the disk too.  That is if 
MyRPackages is on C and R
 > > > >>>>>is installed on D then install your package via:
 > > > >>>>>
 > > > >>>>>d:
 > > > >>>>>cd \Program Files\R\rw2010
 > > > >>>>>bin\R CMD install c:/MyRPackages/example
 > > > >>>>>
 > > > >>>>>Note that bin\R means to run R.exe in the bin subfolder of 
the current folder
 > > > >>>>>using command script install and the indicated source package.
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>>I am not sure that I set up R in "D:\" But I do so much 
action in C:\  Did I do the correct action? Did I do the action into the 
correct path?
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>If you are not sure where R is installed then enter the 
following at the Windows
 > > > >>>>>console prompt to find out (this will work provided you let 
it install the key
 > > > >>>>>into the registry when you installed R initially).  The reg 
command is a command
 > > > >>>>>built into Windows (I used XP but I assume its the same on 
other versions)
 > > > >>>>>that will query the Windows registry:
 > > > >>>>>
 > > > >>>>>reg query hklm\software\r-core\r /v InstallPath
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>>I still need your and others help. Thank you very much!
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>-----åŽŸå§‹é‚®ä»¶-----
 > > > >>>>>>å‘ä»¶äºº: Gabor Grothendieck [mailto:ggrothendieck at gmail.com]
 > > > >>>>>>å‘é€æ—¶é—´: 2005å¹´6æœˆ6æ—¥ 10:21
 > > > >>>>>>æ”¶ä»¶äºº: Ivy_Li
 > > > >>>>>>æŠ„é€: r-help at stat.math.ethz.ch
 > > > >>>>>>ä¸»é¢˜: Re: [R] fail in adding library in new version.
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>On 6/5/05, Ivy_Li <Ivy_Li at smics.com> wrote:
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>>Hello everybody,
 > > > >>>>>>>     Could I consult you a question?
 > > > >>>>>>>     I always use R old version 1.9.1 . Because I can not 
add my library into the new version 2.0.0 by the same method as old version.
 > > > >>>>>>
 > > > >>>>>>Getting the latest version of R is strongly recommended. 
The suggestions
 > > > >>>>>>below all assume the latest version and may or may not work 
if you do
 > > > >>>>>>not upgrade.
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>>*       I have read the webpage 
<http://www.stats.ox.ac.uk/pub/Rtools>
 > > > >>>>>>>*       Download the tools.zip
 > > > >>>>>>>*       Unpack tools.zip into c:\cygwin
 > > > >>>>>>>*       Install Active Perl in c:\Perl
 > > > >>>>>>>*       Install the mingw32 port of gcc in c:\mingwin
 > > > >>>>>>>*       Then go to "Control Panel -> System -> Advanced -> 
Environment Variables -> Path -> Variable Balue" add 
;c:\cygwin;c:\mingwin\bin
 > > > >>>>>>
 > > > >>>>>>You may need to put these at the beginning of the path 
rather than the end.
 > > > >>>>>>Also just as a check enter
 > > > >>>>>>  path
 > > > >>>>>>at the console to make sure that you have them.  You will 
likely
 > > > >>>>>>have to start a new console session and possibly even reboot.
 > > > >>>>>>
 > > > >>>>>>Also you need the Microsoft Help Compiler, hhc.  Suggest
 > > > >>>>>>you reread the material on which tools you need.
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>>*       Save my library "example" into "c:\MyRpackages\" . 
But I am not sure what type it is, is it need suffix?" And I don't what 
its content, just my function script, no special format?
 > > > >>>>>>
 > > > >>>>>>In MyRPackages you would have a folder called example, in 
your case,
 > > > >>>>>>that contains the package.  Within folder example, you 
would have the
 > > > >>>>>>DESCRIPTION file, the R folder, etc.
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>>*       Then I don't know where should I do this step: 
Type R CMD INSTALL --build example. Need I run R first?
 > > > >>>>>>
 > > > >>>>>>You don't have to run R first.  You do need to make sure 
that R.exe can
 > > > >>>>>>be found on your path or else use the absolute path name in 
referring to R.
 > > > >>>>>>For example, if your path does not include R you could do 
something like this:
 > > > >>>>>>
 > > > >>>>>>cd \Program Files\R\rw2010
 > > > >>>>>>bin\R cmd install /MyRPackages/example
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>Sorry, there is an error in the above.  It should be:
 > > > >>>>>
 > > > >>>>>bin\R CMD install c:/MyRPackages/example
 > > > >>>>>
 > > > >>>>>or
 > > > >>>>>
 > > > >>>>>bin\Rcmd install c:/MyRPackages/example
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>>Be sure to use forward slashes where shown above and 
backslashes
 > > > >>>>>>where shown.
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>
 > > > >>>>>>>     So There is a error after I do this step.  It said it 
can not find somethig. I don't which step is wrong. It costed me much time.
 > > > >>>>>>>
 > > > >>>>>>
 > > > >>>>>>Try all these suggestions including upgrading R and if that 
does not work
 > > > >>>>>>try posting screen dumps of the actual errors you are getting.
 > > > >>>>>>
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>Also try googling for
 > > > >>>>>
 > > > >>>>> making creating R packages
 > > > >>>>>
 > > > >>>>>and you will find some privately written tutorials on all this.
 > > > >>>>>
 > > > >>>>>
 > > > >>>>>
 > > > 
 >>>>>------------------------------------------------------------------------
 > > > >>>>>
 > > > >>>>>______________________________________________
 > > > >>>>>R-help at stat.math.ethz.ch mailing list
 > > > >>>>>https://stat.ethz.ch/mailman/listinfo/r-help
 > > > >>>>>PLEASE do read the posting guide! 
http://www.R-project.org/posting-guide.html
 > > > >>>>
 > > > >>>>
 > > > >>
 > > > >
 > > > >
 > > > > 
------------------------------------------------------------------------
 > > > >
 > > > > ______________________________________________
 > > > > R-help at stat.math.ethz.ch mailing list
 > > > > https://stat.ethz.ch/mailman/listinfo/r-help
 > > > > PLEASE do read the posting guide! 
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 > > >
 > > > ______________________________________________
 > > > R-help at stat.math.ethz.ch mailing list
 > > > https://stat.ethz.ch/mailman/listinfo/r-help
 > > > PLEASE do read the posting guide! 
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 > >
 >
 >
 >
 > ______________________________________________
 > R-help at stat.math.ethz.ch mailing list
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 > PLEASE do read the posting guide! 
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