R devel - Jan 2015 - problem with update.packages() in R-Devel (3.2.0) on Windows

Dear all,

I've noticed the following problem for the past several days:

---------------- snip ----------------
> update.packages(ask=FALSE)
. . .

trying URL 'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
Error in download.file(url, destfile, method, mode = "wb", ...) : 
  cannot open URL
'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
In addition: Warning message:
In download.file(url, destfile, method, mode = "wb", ...) :
  cannot open: HTTP status was '404 Not Found'
Warning in download.packages(pkgs, destdir = tmpd, available = available,  :
  download of package 'zoo' failed

---------------- snip ----------------

Apparently, the subdirectory for the version number (/3.2) is missing from
the URL. OTOH, install.packages() works fine:

---------------- snip ----------------
> install.packages("zoo")
trying URL
'http://cran.utstat.utoronto.ca/bin/windows/contrib/3.2/zoo_1.7-11.zip'
Content type 'application/zip' length 878614 bytes (858 KB)
opened URL
downloaded 858 KB

package 'zoo' successfully unpacked and MD5 sums checked

The downloaded binary packages are in
        C:\Users\John Fox\AppData\Local\Temp\RtmpuKqvB0\downloaded_packages

---------------- snip ----------------

Session info:

---------------- snip ----------------
> sessionInfo()
R Under development (unstable) (2015-01-25 r67615)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

locale:
[1] LC_COLLATE=English_Canada.1252  LC_CTYPE=English_Canada.1252   
[3] LC_MONETARY=English_Canada.1252 LC_NUMERIC=C                   
[5] LC_TIME=English_Canada.1252    

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

loaded via a namespace (and not attached):
[1] tools_3.2.0

---------------- snip ----------------

Best,
 John

-------------------------------------------------------
John Fox, Professor
McMaster University
Hamilton, Ontario, Canada
http://socserv.mcmaster.ca/jfox/




---
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We are several seeing this one. It's a known bug, cf.
https://stat.ethz.ch/pipermail/r-devel/2015-January/070513.html

Henrik

On Mon, Jan 26, 2015 at 9:54 AM, John Fox <jfox at mcmaster.ca>
wrote:
> Dear all,
>
> I've noticed the following problem for the past several days:
>
> ---------------- snip ----------------
>> update.packages(ask=FALSE)
>
> . . .
>
> trying URL
'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
> Error in download.file(url, destfile, method, mode = "wb", ...) :
>   cannot open URL
> 'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
> In addition: Warning message:
> In download.file(url, destfile, method, mode = "wb", ...) :
>   cannot open: HTTP status was '404 Not Found'
> Warning in download.packages(pkgs, destdir = tmpd, available = available, 
:
>   download of package 'zoo' failed
>
> ---------------- snip ----------------
>
> Apparently, the subdirectory for the version number (/3.2) is missing from
> the URL. OTOH, install.packages() works fine:
>
> ---------------- snip ----------------
>
>> install.packages("zoo")
> trying URL
>
'http://cran.utstat.utoronto.ca/bin/windows/contrib/3.2/zoo_1.7-11.zip'
> Content type 'application/zip' length 878614 bytes (858 KB)
> opened URL
> downloaded 858 KB
>
> package 'zoo' successfully unpacked and MD5 sums checked
>
> The downloaded binary packages are in
>         C:\Users\John Fox\AppData\Local\Temp\RtmpuKqvB0\downloaded_packages
>
> ---------------- snip ----------------
>
> Session info:
>
> ---------------- snip ----------------
>
>> sessionInfo()
> R Under development (unstable) (2015-01-25 r67615)
> Platform: x86_64-w64-mingw32/x64 (64-bit)
> Running under: Windows 7 x64 (build 7601) Service Pack 1
>
> locale:
> [1] LC_COLLATE=English_Canada.1252  LC_CTYPE=English_Canada.1252
> [3] LC_MONETARY=English_Canada.1252 LC_NUMERIC=C
> [5] LC_TIME=English_Canada.1252
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> loaded via a namespace (and not attached):
> [1] tools_3.2.0
>
> ---------------- snip ----------------
>
> Best,
>  John
>
> -------------------------------------------------------
> John Fox, Professor
> McMaster University
> Hamilton, Ontario, Canada
> http://socserv.mcmaster.ca/jfox/
>
>
>
>
> ---
> This email has been checked for viruses by Avast antivirus software.
> http://www.avast.com
>
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel

----- Original Message -----
> From: "Henrik Bengtsson" <hb at biostat.ucsf.edu>
> To: "John Fox" <jfox at mcmaster.ca>
> Cc: "R-devel" <r-devel at r-project.org>
> Sent: Monday, January 26, 2015 11:12:39 AM
> Subject: Re: [Rd] problem with update.packages() in R-Devel (3.2.0) on
Windows
> 
> We are several seeing this one. It's a known bug, cf.
> https://stat.ethz.ch/pipermail/r-devel/2015-January/070513.html
> 
See also 
https://bugs.r-project.org/bugzilla3/show_bug.cgi?id=16172
> Henrik
> 
> On Mon, Jan 26, 2015 at 9:54 AM, John Fox <jfox at mcmaster.ca>
wrote:
> > Dear all,
> >
> > I've noticed the following problem for the past several days:
> >
> > ---------------- snip ----------------
> >> update.packages(ask=FALSE)
> >
> > . . .
> >
> > trying URL
> > 'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
> > Error in download.file(url, destfile, method, mode = "wb",
...) :
> >   cannot open URL
> > 'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
> > In addition: Warning message:
> > In download.file(url, destfile, method, mode = "wb", ...) :
> >   cannot open: HTTP status was '404 Not Found'
> > Warning in download.packages(pkgs, destdir = tmpd, available > >
available,  :
> >   download of package 'zoo' failed
> >
> > ---------------- snip ----------------
> >
> > Apparently, the subdirectory for the version number (/3.2) is
> > missing from
> > the URL. 
It's not that the version number is missing, it's that it's looking
in the src/contrib section
of the repository (which doesn't have a version number). 

Dan

> > OTOH, install.packages() works fine:
> >
> > ---------------- snip ----------------
> >
> >> install.packages("zoo")
> > trying URL
> >
'http://cran.utstat.utoronto.ca/bin/windows/contrib/3.2/zoo_1.7-11.zip'
> > Content type 'application/zip' length 878614 bytes (858 KB)
> > opened URL
> > downloaded 858 KB
> >
> > package 'zoo' successfully unpacked and MD5 sums checked
> >
> > The downloaded binary packages are in
> >         C:\Users\John
> >         Fox\AppData\Local\Temp\RtmpuKqvB0\downloaded_packages
> >
> > ---------------- snip ----------------
> >
> > Session info:
> >
> > ---------------- snip ----------------
> >
> >> sessionInfo()
> > R Under development (unstable) (2015-01-25 r67615)
> > Platform: x86_64-w64-mingw32/x64 (64-bit)
> > Running under: Windows 7 x64 (build 7601) Service Pack 1
> >
> > locale:
> > [1] LC_COLLATE=English_Canada.1252  LC_CTYPE=English_Canada.1252
> > [3] LC_MONETARY=English_Canada.1252 LC_NUMERIC=C
> > [5] LC_TIME=English_Canada.1252
> >
> > attached base packages:
> > [1] stats     graphics  grDevices utils     datasets  methods
> >   base
> >
> > loaded via a namespace (and not attached):
> > [1] tools_3.2.0
> >
> > ---------------- snip ----------------
> >
> > Best,
> >  John
> >
> > -------------------------------------------------------
> > John Fox, Professor
> > McMaster University
> > Hamilton, Ontario, Canada
> > http://socserv.mcmaster.ca/jfox/
> >
> >
> >
> >
> > ---
> > This email has been checked for viruses by Avast antivirus
> > software.
> > http://www.avast.com
> >
> > ______________________________________________
> > 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
>

It works again using:

% R --version
R Under development (unstable) (2015-01-26 r67627) -- "Unsuffered
Consequences"
Copyright (C) 2015 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

/Henrik

On Mon, Jan 26, 2015 at 9:54 AM, John Fox <jfox at mcmaster.ca> wrote:
> Dear all,
>
> I've noticed the following problem for the past several days:
>
> ---------------- snip ----------------
> > update.packages(ask=FALSE)
>
> . . .
>
> trying URL
'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
> Error in download.file(url, destfile, method, mode = "wb", ...) :
>   cannot open URL
> 'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
> In addition: Warning message:
> In download.file(url, destfile, method, mode = "wb", ...) :
>   cannot open: HTTP status was '404 Not Found'
> Warning in download.packages(pkgs, destdir = tmpd, available = available,
> :
>   download of package 'zoo' failed
>
> ---------------- snip ----------------
>
> Apparently, the subdirectory for the version number (/3.2) is missing from
> the URL. OTOH, install.packages() works fine:
>
> ---------------- snip ----------------
>
> > install.packages("zoo")
> trying URL
>
'http://cran.utstat.utoronto.ca/bin/windows/contrib/3.2/zoo_1.7-11.zip'
> Content type 'application/zip' length 878614 bytes (858 KB)
> opened URL
> downloaded 858 KB
>
> package 'zoo' successfully unpacked and MD5 sums checked
>
> The downloaded binary packages are in
>         C:\Users\John Fox\AppData\Local\Temp\RtmpuKqvB0\downloaded_packages
>
> ---------------- snip ----------------
>
> Session info:
>
> ---------------- snip ----------------
>
> > sessionInfo()
> R Under development (unstable) (2015-01-25 r67615)
> Platform: x86_64-w64-mingw32/x64 (64-bit)
> Running under: Windows 7 x64 (build 7601) Service Pack 1
>
> locale:
> [1] LC_COLLATE=English_Canada.1252  LC_CTYPE=English_Canada.1252
> [3] LC_MONETARY=English_Canada.1252 LC_NUMERIC=C
> [5] LC_TIME=English_Canada.1252
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> loaded via a namespace (and not attached):
> [1] tools_3.2.0
>
> ---------------- snip ----------------
>
> Best,
>  John
>
> -------------------------------------------------------
> John Fox, Professor
> McMaster University
> Hamilton, Ontario, Canada
> http://socserv.mcmaster.ca/jfox/
>
>
>
>
> ---
> This email has been checked for viruses by Avast antivirus software.
> http://www.avast.com
>
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
>
	[[alternative HTML version deleted]]

----- Original Message -----
> From: "Henrik Bengtsson" <hb at biostat.ucsf.edu>
> To: "John Fox" <jfox at mcmaster.ca>
> Cc: "R-devel" <r-devel at r-project.org>
> Sent: Tuesday, January 27, 2015 10:15:36 AM
> Subject: Re: [Rd] problem with update.packages() in R-Devel (3.2.0) on
Windows
> 
> It works again using:
> 
> % R --version
> R Under development (unstable) (2015-01-26 r67627) -- "Unsuffered
> Consequences"
> Copyright (C) 2015 The R Foundation for Statistical Computing
> Platform: x86_64-w64-mingw32/x64 (64-bit)
> 
Indeed. I've closed PR#16172.

Dan

> /Henrik
> 
> On Mon, Jan 26, 2015 at 9:54 AM, John Fox <jfox at mcmaster.ca>
wrote:
> 
> > Dear all,
> >
> > I've noticed the following problem for the past several days:
> >
> > ---------------- snip ----------------
> > > update.packages(ask=FALSE)
> >
> > . . .
> >
> > trying URL
> > 'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
> > Error in download.file(url, destfile, method, mode = "wb",
...) :
> >   cannot open URL
> > 'http://cran.utstat.utoronto.ca/src/contrib/zoo_1.7-11.zip'
> > In addition: Warning message:
> > In download.file(url, destfile, method, mode = "wb", ...) :
> >   cannot open: HTTP status was '404 Not Found'
> > Warning in download.packages(pkgs, destdir = tmpd, available > >
available,
> > :
> >   download of package 'zoo' failed
> >
> > ---------------- snip ----------------
> >
> > Apparently, the subdirectory for the version number (/3.2) is
> > missing from
> > the URL. OTOH, install.packages() works fine:
> >
> > ---------------- snip ----------------
> >
> > > install.packages("zoo")
> > trying URL
> >
'http://cran.utstat.utoronto.ca/bin/windows/contrib/3.2/zoo_1.7-11.zip'
> > Content type 'application/zip' length 878614 bytes (858 KB)
> > opened URL
> > downloaded 858 KB
> >
> > package 'zoo' successfully unpacked and MD5 sums checked
> >
> > The downloaded binary packages are in
> >         C:\Users\John
> >         Fox\AppData\Local\Temp\RtmpuKqvB0\downloaded_packages
> >
> > ---------------- snip ----------------
> >
> > Session info:
> >
> > ---------------- snip ----------------
> >
> > > sessionInfo()
> > R Under development (unstable) (2015-01-25 r67615)
> > Platform: x86_64-w64-mingw32/x64 (64-bit)
> > Running under: Windows 7 x64 (build 7601) Service Pack 1
> >
> > locale:
> > [1] LC_COLLATE=English_Canada.1252  LC_CTYPE=English_Canada.1252
> > [3] LC_MONETARY=English_Canada.1252 LC_NUMERIC=C
> > [5] LC_TIME=English_Canada.1252
> >
> > attached base packages:
> > [1] stats     graphics  grDevices utils     datasets  methods
> >   base
> >
> > loaded via a namespace (and not attached):
> > [1] tools_3.2.0
> >
> > ---------------- snip ----------------
> >
> > Best,
> >  John
> >
> > -------------------------------------------------------
> > John Fox, Professor
> > McMaster University
> > Hamilton, Ontario, Canada
> > http://socserv.mcmaster.ca/jfox/
> >
> >
> >
> >
> > ---
> > This email has been checked for viruses by Avast antivirus
> > software.
> > http://www.avast.com
> >
> > ______________________________________________
> > R-devel at r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-devel
> >
> 
> 	[[alternative HTML version deleted]]
> 
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
>