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-pd > On 28 Mar 2018, at 01:32 , Paul Lantos <paul.lan...@duke.edu> wrote: > > I don't believe I've gotten a reply from a Kevin Thorpe. > > > -------- Original message -------- > From: Jeff Newmiller <jdnew...@dcn.davis.ca.us> > Date: 3/27/18 5:57 PM (GMT-05:00) > To: Paul Lantos <paul.lan...@duke.edu> > Cc: r-help@r-project.org > Subject: RE: [R] unable to move temporary installation of package > > Have you investigated the issue Kevin Thorpe suggested? > -- > Sent from my phone. Please excuse my brevity. > > On March 27, 2018 2:31:31 PM PDT, Paul Lantos <paul.lan...@duke.edu> wrote: >> I deleted my library, reinstalled R, and had the same issue -- couldn't >> install anything into its newly created library. >> >> -----Original Message----- >> From: Jeff Newmiller [mailto:jdnew...@dcn.davis.ca.us] >> Sent: Tuesday, March 27, 2018 2:26 PM >> To: Paul Lantos <paul.lan...@duke.edu> >> Cc: r-help@r-project.org >> Subject: RE: [R] unable to move temporary installation of package >> >> Do you have other instances of R open at the time you are doing this? >> Did you already have mgcv installed in your personal library when you >> tried installing it again? >> >> There is clearly something preventing you from writing to your library, >> or at least to specific packages in your library. >> >> On Tue, 27 Mar 2018, 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=DwIBAg&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0Sj_gZ4adc&r=pCiIbVPBNWU0azo0D48ChUH_fawb-FalNVOf1sUn1r4&m=cnrBOleGliiFa8hOlBIzbkSfykST3IYxYCJFIogIDYg&s=WY21_BHbK9IkP-8et8jU7l6Pm7_pSyImUZruBbgoX3Y&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=DwIBAg&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0Sj_gZ4adc&r=pCiIbVPBNWU0azo0D48ChUH_fawb-FalNVOf1sUn1r4&m=cnrBOleGliiFa8hOlBIzbkSfykST3IYxYCJFIogIDYg&s=MWGJrHQcUlS2AM48C7B_HqF-Lb5TFwTCfan__4KRZ44&e="; >> "https://urldefense.proofpoint.com/v2/url?u=http-3A__www.stats.ox.ac.uk_pub_RWin&d=DwIBAg&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0Sj_gZ4adc&r=pCiIbVPBNWU0azo0D48ChUH_fawb-FalNVOf1sUn1r4&m=cnrBOleGliiFa8hOlBIzbkSfykST3IYxYCJFIogIDYg&s=IO53ger_SKjv4l1y9s2_ZsB8_KlSNeQ_eN9Coj9coNY&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 >>>>>> _____________________________________________ >>>>>> >>>>>> >>>>>> [[alternative HTML version deleted]] >>>>>> >>>>>> ______________________________________________ >>>>>> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see >>>>>> >> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_m >>>>>> ail >>>>>> m >>>>>> >> an_listinfo_r-2Dhelp&d=DwIFaQ&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0S >>>>>> j_g >>>>>> Z >>>>>> >> 4adc&r=pCiIbVPBNWU0azo0D48ChUH_fawb-FalNVOf1sUn1r4&m=twuFRS-tVJfQuR >>>>>> zjI >>>>>> S >>>>>> >> 0GBC710QPtmpe1rDy5PNvS-GI&s=OtjN9-16IbB6IqUW1THCx-YX8wccZgBEQmfZY6c >>>>>> uBI >>>>>> I >>>>>> &e= >>>>>> PLEASE do read the posting guide >>>>>> >> https://urldefense.proofpoint.com/v2/url?u=http-3A__www.R-2Dproject >>>>>> .or >>>>>> g >>>>>> >> _posting-2Dguide.html&d=DwIFaQ&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0 >>>>>> Sj_ >>>>>> g >>>>>> >> Z4adc&r=pCiIbVPBNWU0azo0D48ChUH_fawb-FalNVOf1sUn1r4&m=twuFRS-tVJfQu >>>>>> Rzj >>>>>> I >>>>>> >> S0GBC710QPtmpe1rDy5PNvS-GI&s=sY7Wm-L9iESeuqa2CevDBwLsBx06RewTYq2-DF >>>>>> g9K M U&e= and provide commented, minimal, self-contained, >>>>>> reproducible >>>>> code. >>>> >>> >>> >> --------------------------------------------------------------------------- >>> Jeff Newmiller The ..... ..... Go >> Live... >>> DCN:<jdnew...@dcn.davis.ca.us> Basics: ##.#. ##.#. Live >> Go... >>> Live: OO#.. Dead: OO#.. >> Playing >>> Research Engineer (Solar/Batteries O.O#. #.O#. with >>> /Software/Embedded Controllers) .OO#. .OO#. >> rocks...1k >>> >> ---------------------------------------------------------------------- >>> ----- >>> >> >> --------------------------------------------------------------------------- >> Jeff Newmiller The ..... ..... Go >> Live... >> DCN:<jdnew...@dcn.davis.ca.us> Basics: ##.#. ##.#. Live >> Go... >> Live: OO#.. Dead: OO#.. Playing >> Research Engineer (Solar/Batteries O.O#. #.O#. with >> /Software/Embedded Controllers) .OO#. .OO#. >> rocks...1k >> --------------------------------------------------------------------------- > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. -- Peter Dalgaard, Professor, Center for Statistics, Copenhagen Business School Solbjerg Plads 3, 2000 Frederiksberg, Denmark Phone: (+45)38153501 Office: A 4.23 Email: pd....@cbs.dk Priv: pda...@gmail.com ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
