OK, so not the system tar; that settles that. Simon (cc'ed) might still want to fix J vs j, though.
Re. permissions, I suspect you want to either - run R as root for the installation - change permissions on /opt/R & subdirectories or - install to a different directory Re. MacPorts vs Simon's tools I really have no clue, except that it very often doesn't work to mix and match different toolchains. -pd > On 23 Mar 2025, at 12.55, Naresh Gurbuxani <naresh_gurbux...@hotmail.com> > wrote: > > > notes $ which tar > /opt/local/libexec/gnubin/tar > notes $ tar --version > tar (GNU tar) 1.35 > Copyright (C) 2023 Free Software Foundation, Inc. > License GPLv3+: GNU GPL version 3 or later > <https://gnu.org/licenses/gpl.html>. > This is free software: you are free to change and redistribute it. > There is NO WARRANTY, to the extent permitted by law. > > Written by John Gilmore and Jay Fenlason. > notes $ > > I use MacPorts package manager to install most software. For R, I switched > to manual install because, with MacPorts data.table could not pick up openmp > support. > > Using uppercase J as suggested by Rodney successfully downloaded boost on my > computer. But it cannot install. Below are first few lines of messages: > >> install.libs("boost") > Downloading https://mac.R-project.org/bin/REPOS ... > Using repository https://mac.R-project.org/bin/darwin20/x86_64 ... > Downloading index https://mac.R-project.org/bin/darwin20/x86_64/PACKAGES ... > Downloading + installing > https://mac.R-project.org/bin/darwin20/x86_64/boost-1.86.0-darwin.20-x86_64.tar.xz > ... > tar: opt/R/x86_64/include: Cannot utime: Permission denied > tar: opt/R/x86_64/lib: Cannot utime: Permission denied > tar: opt/R/x86_64/pkg/boost-1.86.0-darwin.20-x86_64.list: Cannot open: > Permission denied > (Many more lines with Permission denied message) > > I have another question. I need boost to install RQuantLib. My computer > already has MacPorts-installed boost and MacPorts installed QuantLib. But > RQuantLib installation is not picking up boost. Is there a way to get that > working? > >> install.packages("RQuantLib", lib = .libPaths()[2], repos = >> "https://cran.r-project.org";, type = "source", configure.args = >> c("--with-boost-include=/opt/local/libexec/boost/1.76/include/"), >> configure.vars = c("CPPFLAGS='-DQL_HIGH_RESOLUTION_DATE'")) > trying URL 'https://cran.r-project.org/src/contrib/RQuantLib_0.4.24.tar.gz' > Content type 'application/x-gzip' length 195836 bytes (191 KB) > ================================================== > downloaded 191 KB > > * installing *source* package ‘RQuantLib’ ... > ** package ‘RQuantLib’ successfully unpacked and MD5 sums checked > ** using staged installation > checking whether the C++ compiler works... yes > checking for C++ compiler default output file name... a.out > checking for suffix of executables... > checking whether we are cross compiling... no > checking for suffix of object files... o > checking whether the compiler supports GNU C++... yes > checking whether clang++ -arch x86_64 -std=gnu++17 accepts -g... yes > checking for clang++ -arch x86_64 -std=gnu++17 option to enable C++11 > features... none needed > checking how to run the C++ preprocessor... clang++ -arch x86_64 -std=gnu++17 > -E > checking whether the compiler supports GNU C++... (cached) yes > checking whether clang++ -arch x86_64 -std=gnu++17 accepts -g... (cached) yes > checking for clang++ -arch x86_64 -std=gnu++17 option to enable C++11 > features... (cached) none needed > checking for R... yes > checking for quantlib-config... yes > checking for suitable QuantLib version... yes (1.36) > checking for Boost development files... no > configure: error: Boost development files not found > ERROR: configuration failed for package ‘RQuantLib’ > * removing > ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/RQuantLib’ > > The downloaded source packages are in > ‘/private/var/folders/nb/2vppcjgd19l_h9brvzgdjcm40000gn/T/RtmpKL66sI/downloaded_packages’ > Warning message: > In install.packages("RQuantLib", lib = .libPaths()[2], repos = > "https://cran.r-project.org";, : > installation of package ‘RQuantLib’ had non-zero exit status > In terminal > notes $ ls /opt/local/libexec/boost/1.76/include/ > boost > >> On Mar 23, 2025, at 6:21 AM, peter dalgaard <pda...@gmail.com> wrote: >> >> Oddly, this doesn't happen here, even though I also tar xj instead of xJ ot >> the .xz file. >> >> Any chance you two could be picking up a different tar? I am seeing >> >> PeterDaardsiMac:ISwR pd$ which tar >> /usr/bin/tar >> PeterDaardsiMac:ISwR pd$ tar --version >> bsdtar 3.5.3 - libarchive 3.5.3 zlib/1.2.12 liblzma/5.4.3 bz2lib/1.0.8 >> >> and "man tar" claims that j and J options are "c mode only" so presumably >> ignored and tar gets the compression type from the input itself. >> >> -pd >> >>> On 22 Mar 2025, at 15.53, Sparapani, Rodney via R-SIG-Mac >>> <r-sig-mac@r-project.org> wrote: >>> >>> Hi Naresh: >>> >>> I’m seeing the same error message. And it makes sense >>> because the boost tar-ball is compressed with xz and >>> not bzip2. On line 87 of install.R, we have the following… >>> if (system(paste("curl", "-sSL", shQuote(u), "|", "tar fxj - -C /")) < 0) >>> Little j means bzip2 while big J is xz. So try substituting… >>> if (system(paste("curl", "-sSL", shQuote(u), "|", "tar fxJ - -C /")) < 0) >>> >>> -- >>> Rodney Sparapani, Associate Professor of Biostatistics >>> President, Wisconsin Chapter of the American Statistical Association >>> Division of Biostatistics, Data Science Institute >>> Medical College of Wisconsin, Milwaukee Campus >>> >>> >>> From: R-SIG-Mac <r-sig-mac-boun...@r-project.org> on behalf of Naresh >>> Gurbuxani <naresh_gurbux...@hotmail.com> >>> Date: Saturday, March 22, 2025 at 8:02 AM >>> To: r-sig-mac@r-project.org <r-sig-mac@r-project.org> >>> Subject: [R-SIG-Mac] install.libs error >>> Downloading + installing >>> https://mac.R-project.org/bin/darwin20/x86_64/boost-1.86.0-darwin.20-x86_64.tar.xz$<https://mac.R-project.org/bin/darwin20/x86_64/boost-1.86.0-darwin.20-x86_64.tar.xz%20$> >>> ... >>> bzip2: (stdin) is not a bzip2 file. >>> tar: Child died with signal 13 >>> tar: Error is not recoverable: exiting now >>> curl: (23) Failure writing output to destination, passed 8192 returned 0 >>> >>> [[alternative HTML version deleted]] >>> >>> _______________________________________________ >>> R-SIG-Mac mailing list >>> R-SIG-Mac@r-project.org >>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >> >> -- >> Peter Dalgaard, Professor, >> Center for Statistics, Copenhagen Business SchoolSolbjerg Plads 3, 2000 >> Frederiksberg, Denmark >> Phone: (+45)38153501 >> Office: A 4.23 >> Email: pd....@cbs.dk Priv: pda...@gmail.com > > -- Peter Dalgaard, Professor, Center for Statistics, Copenhagen Business SchoolSolbjerg Plads 3, 2000 Frederiksberg, Denmark Phone: (+45)38153501 Office: A 4.23 Email: pd....@cbs.dk Priv: pda...@gmail.com _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
