Re: [Rd] NAMESPACE problem: import(zoo) but 'zoo' could not be loaded

From: Spencer Graves <spencer.graves_at_prodsyse.com>
Date: Wed, 05 Dec 2012 12:26:32 -0800

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"  >

       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
>>>>
>>>> ______________________________________________
>>>> R-devel_at_r-project.org mailing list
>>>>
https://stat.ethz.ch/mailman/listinfo/r-devel
>>>>
>>>
>>
>>
>
> ______________________________________________
> R-devel_at_r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
>
>


-- 
Spencer Graves, PE, PhD
President and Chief Technology Officer
Structure Inspection and Monitoring, Inc.
751 Emerson Ct.
San Josť, CA 95126
ph:  408-655-4567
web:  www.structuremonitoring.com

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