I am glad you found the culprit. I will tuck that additional piece of
info away for the next time my students have trouble.
Kevin
On 03/27/2018 09:22 PM, Paul Lantos wrote:
I think MalwareBytes may have been the culprit. I disabled it and it's working
now (even with my regular antivirus running).
Thanks all for the advice!
Paul
-----Original Message-----
From: Paul Lantos
Sent: Tuesday, March 27, 2018 8:35 PM
To: Kevin E. Thorpe <kevin.tho...@utoronto.ca>; Jeff Newmiller
<jdnew...@dcn.davis.ca.us>
Cc: r-help@r-project.org
Subject: RE: [R] unable to move temporary installation of package
Thanks, Kevin. I have done that but no luck.
Paul
-----Original Message-----
From: Kevin E. Thorpe [mailto:kevin.tho...@utoronto.ca]
Sent: Tuesday, March 27, 2018 2:15 PM
To: Paul Lantos <paul.lan...@duke.edu>; Jeff Newmiller
<jdnew...@dcn.davis.ca.us>
Cc: r-help@r-project.org
Subject: Re: [R] unable to move temporary installation of package
I have seen that error from students trying to install, usually from the Rcpp
package.
One suggestion I received was to try disabling your virus scanner while doing
the install. The reason being that the scanner has not completed its job by the
time the installer wants to move stuff around.
Kevin
On 03/27/2018 01:14 PM, Paul Lantos wrote:
Thanks,
Here's the error, for example:
install.packages("mgcv")
Installing package into 'C:/Users/pl39/Documents/R/win-library/3.4'
(as 'lib' is unspecified)
trying URL
'https://urldefense.proofpoint.com/v2/url?u=https-3A__mirrors.nics.utk.edu_cran_bin_windows_contrib_3.4_mgcv-5F1.8-2D23.zip&d=DwICaQ&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0Sj_gZ4adc&r=pCiIbVPBNWU0azo0D48ChUH_fawb-FalNVOf1sUn1r4&m=5-qaO5WU1pkjvRmIviMw3IowdsiGfP6AgLhJVhucBw8&s=_oH3hPXmUvvElYCBZg_LBSX0-ZF3XUqACxmRdV1Gzso&e='
Content type 'application/zip' length 2775362 bytes (2.6 MB)
downloaded 2.6 MB
package 'mgcv' successfully unpacked and MD5 sums checked Warning in
install.packages :
unable to move temporary installation
'C:\Users\pl39\Documents\R\win-library\3.4\file1f287a90e67\mgcv' to
'C:\Users\pl39\Documents\R\win-library\3.4\mgcv'
The downloaded binary packages are in
C:\Users\pl39\AppData\Local\Temp\RtmpWorMmU\downloaded_packages
getOption("repos")
CRAN CRANextra
"https://urldefense.proofpoint.com/v2/url?u=https-3A__mirrors.nics.utk.edu_cran_&d=DwICaQ&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0Sj_gZ4adc&r=pCiIbVPBNWU0azo0D48ChUH_fawb-FalNVOf1sUn1r4&m=5-qaO5WU1pkjvRmIviMw3IowdsiGfP6AgLhJVhucBw8&s=vmRVCTk6BWFZihnxWmmt3Y-Jiz-XaemOdukRPfySpEY&e=";
"https://urldefense.proofpoint.com/v2/url?u=http-3A__www.stats.ox.ac.uk_pub_RWin&d=DwICaQ&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0Sj_gZ4adc&r=pCiIbVPBNWU0azo0D48ChUH_fawb-FalNVOf1sUn1r4&m=5-qaO5WU1pkjvRmIviMw3IowdsiGfP6AgLhJVhucBw8&s=BUJFWakLtQSrcVuTuqJ-PPtwzHo5pfFje9q2D18Fs-Y&e=";
attr(,"RStudio")
[1] TRUE
I've used different CRAN mirrors though and gotten the same error.
Would you suggest deleting my personal directory and recreating it? I get the
same error if I try and install packages to my documents, my desktop, wherever,
so I sort of doubt that would fix the problem.
Paul
-----Original Message-----
From: Jeff Newmiller [mailto:jdnew...@dcn.davis.ca.us]
Sent: Tuesday, March 27, 2018 1:14 PM
To: Paul Lantos <paul.lan...@duke.edu>
Cc: r-help@r-project.org
Subject: RE: [R] unable to move temporary installation of package
Nothing jumps out at me yet.
1) You missed including the text of your command (presumably
install.packages) along with the actual text of the error.
2) What is the output of:
getOption("repos")
3) You might also consider looking at
system2( "cacls.exe", .libPaths()[1] )
though we may not be able to interpret the output appropriately in this venue if you are
working on a managed computer... you might need local help. I would guess you would need
"yourdomain\youruser:(OI)(CI)F".
Note that your personal R library is not deleted when you uninstall R...
if you have not yet deleted C:\Users\pl39\Documents\R\win-library\3.4
and let R re-create it then uninstalling would not have helped a permissions
problem.
On Tue, 27 Mar 2018, Paul Lantos wrote:
Ok, thanks --
sessionInfo()
R version 3.4.4 (2018-03-15)
Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows >= 8
x64 (build 9200)
Matrix products: default
locale:
[1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United
States.1252 [3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C
[5] LC_TIME=English_United States.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] compiler_3.4.4 tools_3.4.4 yaml_2.1.14
.libPaths()
[1] "C:/Users/pl39/Documents/R/win-library/3.4" "C:/Program
Files/R/R-3.4.4/library"
file.info(.libPaths())
size isdir mode mtime
ctime atime
C:/Users/pl39/Documents/R/win-library/3.4 0 TRUE 777 2018-03-27 10:21:39
2017-12-28 22:20:55 2018-03-27 10:21:39
C:/Program Files/R/R-3.4.4/library 0 TRUE 777 2018-03-25 21:23:45
2018-03-25 21:23:08 2018-03-25 21:23:45
exe
C:/Users/pl39/Documents/R/win-library/3.4 no
C:/Program Files/R/R-3.4.4/library no
-----Original Message-----
From: Jeff Newmiller [mailto:jdnew...@dcn.davis.ca.us]
Sent: Tuesday, March 27, 2018 1:16 AM
To: Paul Lantos <paul.lan...@duke.edu>; r-help@r-project.org
Subject: RE: [R] unable to move temporary installation of package
Perhaps someone here will see something useful if you post the output of the
following function calls:
sessionInfo()
.libPaths()
file.info(.libPaths())
and the verbatim (copied) error (in context) that you are seeing.
--
Sent from my phone. Please excuse my brevity.
On March 26, 2018 6:27:10 PM PDT, Paul Lantos <paul.lan...@duke.edu> wrote:
Thanks Jeff,
So I initially when I got the computer moved my old packages into
the new directory rather than downloading and installing them again.
That was fine. I then just did a test to see if I could write in the
folder and indeed I can. Just not via R.
I uninstalled R Open, installed R 3.4.4, and the problem persisted,
including just running it from the R console rather than from R Studio.
I haven't done anything (like installations) with administrator
rights
- I just have them. That said I've checked the permissions of the
library folder and I have all permission. I don't run R in any
special way.
So I'm not sure where that leaves me... thanks for any suggestions.
Paul
-----Original Message-----
From: Jeff Newmiller [mailto:jdnew...@dcn.davis.ca.us]
Sent: Monday, March 26, 2018 5:22 PM
To: r-help@r-project.org; Paul Lantos <paul.lan...@duke.edu>;
r-help@r-project.org
Subject: Re: [R] unable to move temporary installation of package
A) Don't try to "move" packages from one library (=directory of
installed packages) to another.
B) Although R Open is very close to CRAN R, it has some differences
that you REALLY NEED TO READ about at their website. Pay particular
attention to the checkpoint feature in this case. Note that troubles
installing it or with the MKL are probably off-topic here, though R
language questions should still be fair game.
C) Having Administrator rights carries at least as much
responsibility to know what you are doing BEFORE you do it as it
bestows flexibility to get things done. If you used "Run As
Administrator" to install R or any packages then you have probably
set the permissions on your personal library inappropriately. If so,
you need to use your superpowers judiciously to eliminate your
personal library completely and then run R as a normal user to install/update R
packages.
--
Sent from my phone. Please excuse my brevity.
On March 26, 2018 12:16:02 PM PDT, Paul Lantos
<paul.lan...@duke.edu>
wrote:
I'm running Windows 10 / R Studio / R Open 3.4.3
Since getting a new computer recently I cannot install packages
into
my
personal libpath directory, and I can't seem to update packages (it
says all packages are up to date even if I manually install an old
version). I've got 100% admin rights on the computer and in the
library
folder, I've set my R environment variable to specify the correct
directory, I can freely move things manually in and out of the
library
if needed, and R can read and use any package that's already in there.
But I can't install or I get the "unable to move" error.
I've uninstalled and reinstalled everything, tried this in
non-Studio sessions using both R Open and regular R 3.4.4, and I
get the same error.
Thanks for any help,
Paul Lantos
_____________________________________________
Paul M. Lantos, MD, MS GIS, FIDSA, FAAP, FACP Associate Professor
of Internal Medicine and Pediatrics Pediatric Infectious Diseases
General Internal Medicine Duke University School of Medicine Duke
Global Health Institute
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Li Ka Shing Knowledge Institute of St. Michael's Hospital
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email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016
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