NAMESPACE problem: import(zoo) but 'zoo' could not be loaded

On 12-12-05 3:26 PM, Spencer Graves wrote:

On 12/5/2012 11:27 AM, Duncan Murdoch wrote:

On 12-12-05 2:19 PM, Spencer Graves wrote:

On 12/5/2012 11:10 AM, Duncan Murdoch wrote:

On 12-12-05 1:24 AM, Spencer Graves wrote:

Hello:


          I'm having problems creating a real NAMESPACE to replace
the pro
forma one in the fda package on R-Forge.  "R CMD check" complains,
"Error: package 'zoo' could not be loaded ... there is no package
called
'zoo'";  see below.  I get this both with and without 
"import(zoo)" in
NAMESPACE.


          Suggestions?
          Thanks,
          Spencer


p.s.  The current code including this problem can be obtained 
through
anonymous access via "svn checkout
svn://svn.r-forge.r-project.org/svnroot/fda/".


C:\Users\sgraves\2012\R_pkgs\fda>R CMD check fda_2.3.3.tar.gz
* using log directory 'C:/Users/sgraves/2012/R_pkgs/fda/fda.Rcheck'
* using R version 2.15.2 (2012-10-26)
* using platform: i386-w64-mingw32 (32-bit)

<snip>

* checking loading without being on the library search path ...
WARNING
Loading required package: splines
Loading required package: zoo
Error: package 'zoo' could not be loaded
In addition: Warning message:
In library(pkg, character.only = TRUE, logical.return = TRUE,
lib.loc =
lib.loc)
     :
      there is no package called 'zoo'
Execution halted

It looks like this package has a loading problem when not on
.libPaths:
see the messages for details.

This message is printed by tools when there's an error when it tries
to load a package (not sure if it's yours or zoo) that is not in the
.libPaths.  There might be more details in the check log.

What does it say there?

         I didn't see any more than the portion copied here. Below 
please
find the entire 00check.log.  Thanks, Spencer

Do you have more than one library, or do you use the default
.libPaths()?  I'm on a slightly old install of R on this Mac, and I
see this (starting R from the same place I ran the check):

.libPaths()

[1] "/Library/Frameworks/R.framework/Versions/2.15/Resources/library"

What do you see?

  > .libPaths()

[1] "C:/Users/sgraves/pgms/R/R-2.15.2/library"
[2] "C:/Users/sgraves/R/win-library/2.15"

I would guess the problem is that it is using a different .libPaths 
setting for that test, and zoo is in the wrong place.  I don't know 
whether this is something you did or a bug in the check code.

In any case, that's a funny ordering you're using:  normally I'd 
expect the user-specific library to come first (because it would be 
searched first), and that would be followed by the system library 
installed with R.  How are you setting it?

Duncan Murdoch

  >

        Thanks.  Spencer

Duncan Murdoch

* using log directory 'C:/Users/sgraves/2012/R_pkgs/fda/fda.Rcheck'
* using R version 2.15.2 (2012-10-26)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* checking for file 'fda/DESCRIPTION' ... OK
* this is package 'fda' version '2.3.3'
* 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 'fda' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* 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 ... 
WARNING
Loading required package: splines
Loading required package: zoo
Error: package 'zoo' could not be loaded
In addition: Warning message:
In library(pkg, character.only = TRUE, logical.return = TRUE, 
lib.loc =
lib.loc) :
     there is no package called 'zoo'
Execution halted

It looks like this package has a loading problem when not on 
.libPaths:
see the messages for details.
* 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 metadata ... OK
* checking Rd cross-references ... WARNING
Missing link(s) in documentation object
'C:/Users/sgraves/2012/R_pkgs/fda/fda.Rcheck/00_pkg_src/fda/man/basisfd.Rd': 


     'use.proper.basis' 'is.eqbasis'

Missing link(s) in documentation object
'C:/Users/sgraves/2012/R_pkgs/fda/fda.Rcheck/00_pkg_src/fda/man/cca.fd.Rd': 


     'plot.cca.fd'

Missing link(s) in documentation object
'C:/Users/sgraves/2012/R_pkgs/fda/fda.Rcheck/00_pkg_src/fda/man/monomial.Rd': 


     'polynom'

Missing link(s) in documentation object
'C:/Users/sgraves/2012/R_pkgs/fda/fda.Rcheck/00_pkg_src/fda/man/monomialpen.Rd': 


     'polynompen'

Missing link(s) in documentation object
'C:/Users/sgraves/2012/R_pkgs/fda/fda.Rcheck/00_pkg_src/fda/man/readHMD.Rd': 


     'getURL'

See the information in section 'Cross-references' of the 'Writing R
Extensions' manual.

* 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 installed files from 'inst/doc' ... OK
* checking examples ... ERROR
Running examples in 'fda-Ex.R' failed
The error most likely occurred in:

   > ### Name: CanadianWeather
   > ### Title: Canadian average annual weather cycle
   > ### Aliases: CanadianWeather daily
   > ### Keywords: datasets
   >
   > ### ** Examples
   >
   > ##
   > ## 1.  Plot (latitude & longitude) of stations by region
   > ##
   > with(CanadianWeather, plot(-coordinates[, 2], coordinates[, 1],

type='n',
+                            xlab="West Longitude", ylab="North
Latitude",
+                            axes=FALSE) )

   > Wlon <- pretty(CanadianWeather$coordinates[, 2])
   > axis(1, -Wlon, Wlon)
   > axis(2)
   >
   > rgns <- 1:4
   > names(rgns) <- c('Arctic', 'Atlantic', 'Continental', 'Pacific')
   > Rgns <- rgns[CanadianWeather$region]
   > with(CanadianWeather, points(-coordinates[, 2], coordinates[, 1],

+                              col=Rgns, pch=Rgns) )

   > legend('topright', legend=names(rgns), col=rgns, pch=rgns)
   >
   > ##
   > ## 2.  Plot dailyAv[, 'Temperature.C'] for 4 stations
   > ##
   > data(CanadianWeather)
   > # Expand the left margin to allow space for place names
   > op <- par(mar=c(5, 4, 4, 5)+.1)
   > # Plot
   > stations <- c("Pr. Rupert", "Montreal", "Edmonton", "Resolute")
   > matplot(day.5, CanadianWeather$dailyAv[, stations, 

"Temperature.C"],
+         type="l", axes=FALSE, xlab="", ylab="Mean Temperature (deg
C)")
Error in UseMethod("matplot") :
     no applicable method for 'matplot' applied to an object of class
"c('double', 'numeric')"
Calls: matplot
Execution halted

Duncan Murdoch

    > sessionInfo()

R version 2.15.2 (2012-10-26)
Platform: i386-w64-mingw32/i386 (32-bit)

locale:
[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C
[5] LC_TIME=English_United States.1252

attached base packages:
[1] stats     graphics  grDevices utils     datasets methods base

other attached packages:
[1] zoo_1.7-9

loaded via a namespace (and not attached):
[1] grid_2.15.2     lattice_0.20-10