jonathan_li@agilent.com
2002-Jul-09 17:39 UTC
[R] RE: mvtnorm package installation failure
Hi, Thank you for the tip. I tried to re-intall R from Debian "stable", in which R's version is 1.4.0. And the installation of "mvtnorm" works. I then re-installed R yet again from Debian "unstable" (woody), in which R's version is 1.5.1. The installation of "mvtnorm" fails again with the same error message. Another package that failed with the same error message is "mclust".>From these phenomena, I suspect that the problem is with the Debian version of R 1.5.1. Can someonepoint out a fix? Thanks in advance. Regards, Jonathan Jonathan Qiang Li, Ph.D. Statistician Agilent Labs Palo Alto, CA USA -----Original Message----- From: Torsten Hothorn [mailto:Torsten.Hothorn at rzmail.uni-erlangen.de] Sent: Sunday, June 30, 2002 11:55 PM To: Jonathan Li Subject: Re: mvtnorm package installation failure> Hi, I want to thank you in advance for any assistance you may give: I > had > trouble installing the mvtnorm package. Here is the error message I > encountered: > > R CMD INSTALL mvtnorm > * Installing *source* package 'mvtnorm' ... > ** libs > gcc -shared -o mvtnorm.so mvt.o -L/usr/lib/gcc-lib/i386-linux/2.95.4 > -lreadline -ldl -lncurses -lg2c-pic -lm -L/usr/lib/R/bin -lR > /usr/bin/ld: cannot find -lreadline > collect2: ld returned 1 exit status > make: *** [mvtnorm.so] Error 1 > ERROR: compilation failed for package 'mvtnorm' > > I am using Debian Linux 2.20 on a Intel machine. R version is 1.5.0. > I have not seen this kind of error before. Any hint is highly > appreciated!looks like an R installation problem. did you compile R yourself and what did `make check' say? Torsten> > Best Regards, > Jonathan > > > -- > Jonathan Q. Li, PhD > Agilent Technologies Laboratory > Palo Alto, California, USA >-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or "[un]subscribe" (in the "body", not the subject !) To: r-help-request at stat.math.ethz.ch _._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._
>>>>> "jonathan" == jonathan li <jonathan_li at agilent.com> writes:jonathan> Hi, jonathan> Thank you for the tip. jonathan> I tried to re-intall R from Debian "stable", in which R's version is 1.4.0. And the installation jonathan> of "mvtnorm" works. jonathan> I then re-installed R yet again from Debian "unstable" (woody), in which R's version is 1.5.1. jonathan> The installation of "mvtnorm" fails again with the same error message. Another package that jonathan> failed with the same error message is "mclust". >> From these phenomena, I suspect that the problem is with the Debian version of R 1.5.1. Can someone jonathan> point out a fix? It's not Debian:> install.packages("mvtnorm","/home/faculty/rossini/lib/R")trying URL `http://cran.r-project.org/src/contrib/PACKAGES' Content type `text/plain; charset=iso-8859-1' length 78331 bytes opened URL .......... .......... .......... .......... .......... .......... .......... ...... downloaded 76Kb trying URL `http://cran.r-project.org/src/contrib/mvtnorm_0.5-5.tar.gz' Content type `application/x-tar' length 23578 bytes opened URL .......... .......... ... downloaded 23Kb * Installing *source* package 'mvtnorm' ... ** libs g77 -fPIC -g -O2 -c mvt.f -o mvt.o gcc -shared -o mvtnorm.so mvt.o -L/usr/lib/gcc-lib/i386-linux/2.95.4 -lreadli ne -ldl -lncurses -lg2c-pic -lm -L/usr/lib/R/bin -lR ** R ** help >>> Building/Updating help pages for package `mvtnorm' Formats: text html latex example Mvnorm text html latex example mvtnorm-internal text html latex pmvnorm text html latex example pmvt text html latex example * DONE (mvtnorm) * DONE (INSTALL) Delete downloaded files (y/N)? u The packages are in /tmp/RinstdirR552dS66334873>I think you might need the readline devel package. Maybe try apt-get install libreadline4-dev to install things? (or you might need apt-get install libreadline4 ?) best, -toniy jonathan> Thanks in advance. jonathan> Regards, jonathan> Jonathan jonathan> Jonathan Qiang Li, Ph.D. jonathan> Statistician jonathan> Agilent Labs jonathan> Palo Alto, CA jonathan> USA jonathan> -----Original Message----- jonathan> From: Torsten Hothorn [mailto:Torsten.Hothorn at rzmail.uni-erlangen.de] jonathan> Sent: Sunday, June 30, 2002 11:55 PM jonathan> To: Jonathan Li jonathan> Subject: Re: mvtnorm package installation failure >> Hi, I want to thank you in advance for any assistance you may give: I >> had >> trouble installing the mvtnorm package. Here is the error message I >> encountered: >> >> R CMD INSTALL mvtnorm >> * Installing *source* package 'mvtnorm' ... >> ** libs >> gcc -shared -o mvtnorm.so mvt.o -L/usr/lib/gcc-lib/i386-linux/2.95.4 >> -lreadline -ldl -lncurses -lg2c-pic -lm -L/usr/lib/R/bin -lR >> /usr/bin/ld: cannot find -lreadline >> collect2: ld returned 1 exit status >> make: *** [mvtnorm.so] Error 1 >> ERROR: compilation failed for package 'mvtnorm' >> >> I am using Debian Linux 2.20 on a Intel machine. R version is 1.5.0. >> I have not seen this kind of error before. Any hint is highly >> appreciated! jonathan> looks like an R installation problem. did you compile R yourself and what jonathan> did `make check' say? jonathan> Torsten >> >> Best Regards, >> Jonathan >> >> >> -- >> Jonathan Q. Li, PhD >> Agilent Technologies Laboratory >> Palo Alto, California, USA >> jonathan> -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- jonathan> r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html jonathan> Send "info", "help", or "[un]subscribe" jonathan> (in the "body", not the subject !) To: r-help-request at stat.math.ethz.ch jonathan> _._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._ -- A.J. Rossini Rsrch. Asst. Prof. of Biostatistics U. of Washington Biostatistics rossini at u.washington.edu FHCRC/SCHARP/HIV Vaccine Trials Net rossini at scharp.org -------------- http://software.biostat.washington.edu/ ---------------- FHCRC: M: 206-667-7025 (fax=4812)|Voicemail is pretty sketchy/use Email UW: Th: 206-543-1044 (fax=3286)|Change last 4 digits of phone to FAX (my tuesday/wednesday/friday locations are completely unpredictable.) -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or "[un]subscribe" (in the "body", not the subject !) To: r-help-request at stat.math.ethz.ch _._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._