[R] R CMD check package "mypkg-Ex.R" failed

[Justin]

I build a test package in order to publish my own package to bioconductor.

I am using package.skeleton
Step 1. create test package "mypkg"
  f <- function(x,y) x+y
  package.skeleton(list=c("f"), name="mypkg")

Step 2. build tar.gz file

{mars:/local/workspace01/zhangju/R_autopackage_Elbow}../bin/R CMD build mypkg
* checking for file ‘mypkg/DESCRIPTION’ ... OK
* preparing ‘mypkg’:
* checking DESCRIPTION meta-information ... OK
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building ‘mypkg_1.0.tar.gz’

Step 3. check compressed package file

{mars:/local/workspace01/zhangju/R_autopackage_Elbow}../bin/R CMD check 
mypkg_1.0.tar.gz 
* using log directory 
‘/local/workspace01/zhangju/R_autopackage_Elbow/mypkg.Rcheck’
*
 using R version 2.14.0 (2011-10-31)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘mypkg/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mypkg’ version ‘1.0’
* 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 whether package ‘mypkg’ can be installed ... ERROR
Installation failed.
See 
‘/local/workspace01/zhangju/R_autopackage_Elbow/mypkg.Rcheck/00install.out’ 
for details.

Step 4. check error 

{mars:/local/workspace01/zhangju/R_autopackage_Elbow}head 
mypkg.Rcheck/00install.out 
* installing *source* package ‘mypkg’ ...
** R
** preparing package for lazy loading
** help
Warning:

 
/local/workspace01/zhangju/R_autopackage_Elbow/mypkg.Rcheck/00_pkg_src/mypkg/man/mypkg-package.Rd:33:
 All text must be in a section
Warning: 
/local/workspace01/zhangju/R_autopackage_Elbow/mypkg.Rcheck/00_pkg_src/mypkg/man/mypkg-package.Rd:34:
 All text must be in a section
*** installing help indices
Error in Rd_info(db[[i]]) : 
  missing/empty \title field in 
'/local/workspace01/zhangju/R_autopackage_Elbow/mypkg.Rcheck/00_pkg_src/mypkg/man/f.Rd'
Rd files must have a non-empty \title.

Step 5. add "test package" to the title of f.Rd
Step 6. build again

{mars:/local/workspace01/zhangju/R_autopackage_Elbow}../bin/R CMD build mypkg
* checking for file ‘mypkg/DESCRIPTION’ ... OK
* preparing ‘mypkg’:
* checking DESCRIPTION meta-information ... OK
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building ‘mypkg_1.0.tar.gz’

Step 7.
 check compressed package again

{mars:/local/workspace01/zhangju/R_autopackage_Elbow}../bin/R CMD check 
mypkg_1.0.tar.gz 
* using log directory 
‘/local/workspace01/zhangju/R_autopackage_Elbow/mypkg.Rcheck’
* using R version 2.14.0 (2011-10-31)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘mypkg/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mypkg’ version ‘1.0’
* 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 whether package ‘mypkg’ can be installed ... WARNING
Found the following significant warnings:
  Warning: 
/local/workspace01/zhangju/R_autopackage_Elbow/mypkg.Rcheck/00_pkg_src/mypkg/man/mypkg-package.Rd:33:
 All
 text must be in a section
  Warning: 
/local/workspace01/zhangju/R_autopackage_Elbow/mypkg.Rcheck/00_pkg_src/mypkg/man/mypkg-package.Rd:34:
 All text must be in a section
See 
‘/local/workspace01/zhangju/R_autopackage_Elbow/mypkg.Rcheck/00install.out’ 
for details.
* 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 ... WARNING
Non-standard license specification:
  What license is it under?
Standardizable: FALSE
* 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 whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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 ... OK
* checking Rd files ... WARNING
prepare_Rd: f.Rd:7-9: Dropping empty section \description
prepare_Rd: f.Rd:22-24: Dropping empty section \details
prepare_Rd: f.Rd:25-31: Dropping empty section \value
prepare_Rd: f.Rd:38-40: Dropping empty section \note
prepare_Rd: f.Rd:35-37: Dropping empty section \author
prepare_Rd: f.Rd:32-34: Dropping empty section \references
prepare_Rd: f.Rd:44-46: Dropping empty section \seealso
checkRd: (5) f.Rd:0-60: Must have a
 \description
prepare_Rd: mypkg-package.Rd:33: All text must be in a section
prepare_Rd: mypkg-package.Rd:34: All text must be in a section
* checking Rd metadata ... OK
* checking Rd cross-references ... WARNING
Unknown package(s) ‘<pkg>’ in Rd xrefs
* 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 ... NOTE
Warning: parse error in file ‘mypkg-Ex.R’:
11: unexpected symbol
42: 
43: ~~ simple examples
              ^
* checking examples ... ERROR
Running examples in ‘mypkg-Ex.R’ failed
The error most likely occurred in:

> ### Name: mypkg-package
> ### Title: What the package does (short line) ~~ package title ~~
> ### Aliases:
 mypkg-package mypkg
> ### Keywords: package
> 
> ### ** Examples
> 
> ~~ simple examples of the most important functions ~~
Error: unexpected symbol in "~~ simple examples"
Execution halted


My question: How to correct the above error?

Thanks,

Justin
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