Hi Simon:
First, thanks for all of your hard work on the Mac version. But, I know I can
be blind, and probably am, but I just did the update, and neither in the
original installer nor in the “Package Installer” menu once I did the update
do I see the option you mentioned ("Select packages from R 3.1” in the GUI).
Thanks,
-Roy
> On Apr 17, 2015, at 11:39 AM, Simon Urbanek <[email protected]>
> wrote:
>
>>
>> On Apr 17, 2015, at 10:19 AM, peter dalgaard <[email protected]> wrote:
>>
>>
>> On 17 Apr 2015, at 15:23 , Duncan Murdoch <[email protected]> wrote:
>>
>>> On 17/04/2015 5:54 AM, Roy Mendelssohn - NOAA Federal wrote:
>>>> Hi All:
>>>>
>>>> Since R 3.2 has been released and the Mac version should be available
>>>> shortly, I always forget how the R versioning system and updates relate to
>>>> installed packages. Some updates work with what you have installed, some
>>>> do not. I know if the update was to R version 4.x I would likely have to
>>>> re-install packages. Will this require reinstallation, and in general at
>>>> what level of update is this the case.
>>>
>>> In version x.y.z, you probably won't need to update if only z changes, but
>>> you will if x or y changes, so you should update in this case.
>>>
>>> An easy way to do this is to copy all the packages to the new installation,
>>> then run
>>>
>>> update.packages(checkBuilt = TRUE)
>>>
>>> This will reinstall any packages that were built under an earlier version
>>> of R. (I believe it ignores z in this choice.) The only disadvantage to
>>> doing this is that you will go to the latest version of all packages, and
>>> you might have been postponing that due to incompatible changes.
>>>
>>
>> On Mac it seems to be a bit less convenient because the default setup allows
>> installs to the system library. E.g., I have
>>
>> $ ls /Library/Frameworks/R.framework/Versions/3.1/Resources/library/
>> ADGofTest codetools graphics nortest stats4
>> Ecdat colorspace grid numDeriv stringr
>> Ecfun compiler gsl parallel survival
>> ISwR copula gss plyr tcltk
>> KernSmooth datasets gtable proto timeDate
>> Lahman dichromat labeling pspline
>> timeSeries
>> MASS digest lattice quadprog tools
>> Matrix evir lmom reshape2
>> translations
>> RColorBrewer fBasics manipulate rpart tseries
>> Rcpp fEcofin methods rstudio urca
>> XML fGarch mgcv scales utils
>> base forecast mnormt sn vcd
>> boot foreign munsell spatial zoo
>> bootstrap fracdiff mvtnorm splines
>> class ggplot2 nlme stabledist
>> cluster grDevices nnet stats
>>
>> and once I get around to installing the binaries for 3.2.0, it would be
>> problematic to copy all that stuff (NB: including "base", for instance) over
>> the default install.
>>
>> Something like this may be a better idea:
>>
>>> lib2 <-
>>> list.files("/Library/Frameworks/R.framework/Versions/3.0/Resources/library/")
>>> lib1 <-
>>> list.files("/Library/Frameworks/R.framework/Versions/3.1/Resources/library/")
>>> setdiff(lib2,lib1)
>> [1] "Hmisc" "lme4" "rms" "SparseM"
>> [5] "stockPortfolio" "zipfR"
>>> install.packages(setdiff(lib2,lib1))
>>
>> or, of course, I could have changed the permissions on ..../library to
>> exclude group write permission by "admin" in the first place (but frankly, I
>> have forgotten whether one does anything related to this during standard
>> installation.)
>>
>
>
> Or for Mac users that don't want to do things by hand there is a GUI for that
> - just use "Select packages from R 3.1" in the Package Installer.
>
> The separation of packages by version is intentional since they rarely work
> across major versions - we had too many headaches and silent segfaults.
>
> Cheers,
> Simon
>
>
> FWIW: The Mac 3.2.0 binary release is slightly delayed precisely because
> we're trying to have a more complete set of binary packages than previously
> so they are all getting build against the release. For those impatient you
> can always get the R binaries from the Mac devel page.
>
>
>> Duncan Murdoch
>>>
>>> _______________________________________________
>>> R-SIG-Mac mailing list
>>> [email protected]
>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>
>> --
>> Peter Dalgaard, Professor,
>> Center for Statistics, Copenhagen Business School
>> Solbjerg Plads 3, 2000 Frederiksberg, Denmark
>> Phone: (+45)38153501
>> Office: A 4.23
>> Email: [email protected] Priv: [email protected]
>>
>> _______________________________________________
>> R-SIG-Mac mailing list
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>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>
>
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**********************
"The contents of this message do not reflect any position of the U.S.
Government or NOAA."
**********************
Roy Mendelssohn
Supervisory Operations Research Analyst
NOAA/NMFS
Environmental Research Division
Southwest Fisheries Science Center
***Note new address and phone***
110 Shaffer Road
Santa Cruz, CA 95060
Phone: (831)-420-3666
Fax: (831) 420-3980
e-mail: [email protected] www: http://www.pfeg.noaa.gov/
"Old age and treachery will overcome youth and skill."
"From those who have been given much, much will be expected"
"the arc of the moral universe is long, but it bends toward justice" -MLK Jr.
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