Hello, There is only one fftw3 tar.gz file that I see.
http://www.fftw.org/download.html Once built it provides headers and static libraries to use fftw3 in cpp. For an example of how it's used in cpp see: http://www.fftw.org/fftw3_doc/Complex-One_002dDimensional-DFTs.html#Complex-One_002dDimensional-DFTs As a general rule, you will need header files and to compile cpp code using libraries. This package basically provides a wrapper for fftw3 cpp routines. I wrote it so I could easily swap fftw for fft in my multitaper package. Ok I looked at the curl dependencies on the cran page. If I do something similar, I would have: libfftw3-dev (deb) fftw-devel (rpm) The documentation for these two packages state these contain the header files and static libraries. https://packages.debian.org/stretch/libfftw3-dev http://rpmfind.net/linux/rpm2html/search.php?query=fftw-devel I don't expect to rush this update, and I would appreciate confirmation before doing this from a redhat user. I appreciate that this is of use. I get less comments about this than multitaper. Kind regards, Karim On Fri., Sep. 11, 2020, 19:54 Dirk Eddelbuettel, <e...@debian.org> wrote: > > > Hi Karim, > > On 11 September 2020 at 13:09, Karim Rahim wrote: > | Thanks for resolving this! It's been awhile since I've worked on this... > | > | So for dependencies, I'd like to keep it as simple as possible. I agree > | fftw3 may need to be updated. > | > | It's my understanding that if one were to install the latest fftw (3.3.8) > | from source then it would expose the header file. > > Not necessarily and it depends on how the package is setup. > > In general you want a '-dev' or '-devel' package but I do not know what this > one is called in the Fedora/RH/CentOS world. > > | Is this incorrect? > | > | If this is the case, then it becomes about the various distribution > | specific packages. > | So then I want to aim people in the right direction. > | > | How about? > | > | fftw3 (>= 3.1.2; ensure fftw3.h is exposed - libfftw3-dev in Ubuntu) > > So per the above I would suggest you reconsider the curl example I emailed > earlier and do something like > > fftw3 development package: libfftw3-dev (deb), ..... (rpm) > > Maybe someone can help with the rpm package name. > > Cheers, Dirk > > | > | Kind Regards, > | Karim > | > | > | > | > | > | On Fri, Sep 11, 2020 at 11:20 AM Dirk Eddelbuettel <e...@debian.org> wrote: > | > > | > > | > On 10 September 2020 at 14:14, Marta Karaś wrote: > | > | Adding the following to .travis.yml: > | > | > | > | before_install: > | > | - if [ "$TRAVIS_OS_NAME" = "linux" ]; then sudo apt-get -y install > | > | libfftw3-dev ; fi > | > | > | > | did the trick! > | > > | > I think that is an example of the issue discussed in this blog post: > | > http://dirk.eddelbuettel.com/blog/2020/08/26#029_introducing_bspm > | > > | > The RSPM system gets you the package, but it is by its (on purpose simple) > | > design disconnected and unaware of the dependency required which sent you > | > down a rabbit hole. (One could also suggest that maybe Karim should expand > | > SystemRequirements: fftw3 (>= 3.1.2) > | > to maybe list the packages offering fftw3 _headers_. Jeroen uses a pattern > | > for this, eg curl has > | > SystemRequirements: libcurl: libcurl-devel (rpm) or > | libcurl4-openssl-dev (deb). > | > which is already one step better.) > | > > | > Only systems with actual dependency resolution can go further, but it is > | hard > | > to do that cross-platform / cross-OS. On Linux we have both BSPM > | utilising > | > the existing rpm and deb binaries, respectively, maintained by tireless > | > volunteers, as well as the older use of directly using the binaries. > | > > | > Eg looking at the Ubuntu binary from the Rutter PPA shows that > | > r-cran-fftwtools will bring the fftw3 runtime in: > | > > | > docker@08d894be427a:/work$ apt-cache show r-cran-fftwtools | grep > | ^Depends > | > Depends: r-base-core, libfftw3-double3 (>= 3.3.5) > | > docker@08d894be427a:/work$ > | > > | > That would be an easier binary install as it skips the 'from source' build > | > step that sent Marta hunting for the required header. > | > > | > If I find some time I will try to set up some Travis CI examples utilizing > | > BSPM. Until then, one can do as I have done for over half a decade and > | point > | > Travis CI to these binaries via the (still maintained and simple) r-travis > | > setup. Works for me. See http://eddelbuettel.github.io/r-travis/ and > | > numerous .travis.yml in packages of mine and a few other users. > | > > | > Dirk > | > > | > | Thank you both for your attention to this issue! > | > | > | > | Bests, > | > | Marta Karas > | > | > | > | > | > | > | > | > | > | > | > | On Thu, Sep 10, 2020 at 8:35 AM Karim Rahim <karim.ra...@gmail.com> > | wrote: > | > | > | > | > Thanks, > | > | > > | > | > That may be it. It is a missing dependency. > | > | > > | > | > It's been a while and I'm not sure which package exposes fftw3.h ... > | > | > > | > | > Karim > | > | > > | > | > On Thu, Sep 10, 2020 at 8:16 AM Dirk Eddelbuettel <e...@debian.org> > | wrote: > | > | > > | > | >> > | > | >> On 9 September 2020 at 23:45, Karim Rahim wrote: > | > | >> | sudo apt-get install -y fftw3 > | > | >> > | > | >> Or maybe rather > | > | >> > | > | >> sudo apt-get install libfftw3-dev > | > | >> > | > | >> to get the development headers? > | > | >> > | > | >> Dirk > | > | >> > | > | >> | Then try again. > | > | >> | > | > | >> | Let me know if it doesn't work. > | > | >> | > | > | >> | Cheers! > | > | >> | Karim > | > | >> | > | > | >> | On Wed, Sep 9, 2020 at 10:27 PM Max Turgeon < > | max.turg...@umanitoba.ca> > | > | >> wrote: > | > | >> | > > | > | >> | > Hi Marta, > | > | >> | > > | > | >> | > One change I can see from your Git history that seems to match > | the > | > | >> first failed build on Travis is when you added "Imports: fftwtools" > | to your > | > | >> DESCRIPTION file. And it makes sense, because if we look at its > | DESCRIPTION > | > | >> file, we can see that it has fftw3 as a SystemRequirements. In other > | words, > | > | >> it needs to be installed on Travis before you can run the checks on > | your > | > | >> package. > | > | >> | > > | > | >> | > As for solutions, I can see that Karim wrote a short description > | of > | > | >> how to install the library on Linux, and there's a link for Mac; all > | this > | > | >> is on the Github repo: https://github.com/krahim/fftwtools > | > | >> | > > | > | >> | > I also noticed that there is an R package wrapping fftw on CRAN ( > | > | >> https://cran.r-project.org/package=fftw) and I can see that it's a > | > | >> Suggested package for fftwtools. I haven't tried it, but presumably > | you > | > | >> could install the fftw R package, instead of the fftw3 library. > | > | >> | > > | > | >> | > HTH, > | > | >> | > > | > | >> | > Max Turgeon > | > | >> | > Assistant Professor > | > | >> | > Department of Statistics > | > | >> | > Department of Computer Science| > | > >> | > University of Manitoba > | > | >> | > maxturgeon.ca > | > | >> | > > | > | >> | > > | > | >> | > > | > | >> | > ________________________________ > | > | >> | > From: R-package-devel <r-package-devel-boun...@r-project.org> on > | > | >> behalf of Marta Karaś <marta.kar...@gmail.com> > | > | >> | > Sent: Wednesday, September 9, 2020 9:09 PM > | > | >> | > To: package-develop <r-package-devel@r-project.org> > | > | >> | > Cc: karim.ra...@queensu.ca <karim.ra...@queensu.ca> > | > | >> | > Subject: [R-pkg-devel] Fixing travis build fail due to fftwtools > | > | >> fatal error (fftw3.h: No such file or directory) > | > | >> | > > | > | >> | > ******************************************************** > | > | >> | > Caution: This message was sent from outside the University of > | > | >> Manitoba. > | > | >> | > ******************************************************** > | > | >> | > > | > | >> | > Dear all, > | > | >> | > > | > | >> | > I have been facing travis build fail on linux xenial due to > | *fftwtools > | > | >> | > fatal error* (fftw3.h: No such file or directory) with my R > | package. > | > | >> The > | > | >> | > error appeared at a random time a few months ago (at a random > | time := > | > | >> I do > | > | >> | > not link it with any fftwtools-function related change commit I > | did) > | > | >> and > | > | >> | > persists. > | > | >> | > > | > | >> | > There is not much I achieved in googling and trying to decipher > | it, > | > | >> sadly; > | > | >> | > I am hoping maybe some Community members saw a similar error with > | > | >> their dev > | > | >> | > work and can suggest a hint/solution? > | > | >> | > > | > | >> | > Package GitHub: https://github.com/martakarass/runstats > | > | >> | > Failed Travis job log: > | > | >> | > https://travis-ci.com/github/martakarass/runstats/jobs/383037333 > | > | >> | > > | > | >> | > Error excerpt: > | > | >> | > > | > | >> | > * installing *source* package ‘fftwtools’ ... > | > | >> | > ** package ‘fftwtools’ successfully unpacked and MD5 sums checked > | > | >> | > ** using staged installation > | > | >> | > ** libs > | > | >> | > gcc -I"/opt/R/4.0.2/lib/R/include" -DNDEBUG > | -I/usr/local/include > | > | >> -fpic > | > | >> | > -g -O2 -c fftwtools.c -o fftwtools.o > | > | >> | > fftwtools.c:28:18: fatal error: fftw3.h: No such file or > | directory > | > | >> | > compilation terminated. > | > | >> | > /opt/R/4.0.2/lib/R/etc/Makeconf:167: recipe for target > | 'fftwtools.o' > | > | >> failed > | > | >> | > make: *** [fftwtools.o] Error 1 > | > | >> | > ERROR: compilation failed for package ‘fftwtools’ > | > | >> | > * removing ‘/home/travis/R/Library/fftwtools’ > | > | >> | > Error in i.p(...) : > | > | >> | > (converted from warning) installation of package ‘fftwtools’ > | had > | > | >> non-zero > | > | >> | > exit status > | > | >> | > Calls: <Anonymous> ... with_rprofile_user -> with_envvar -> > | force -> > | > | >> force > | > | >> | > -> i.p > | > | >> | > Execution halted > | > | >> | > The command "Rscript -e 'deps <- > | > | >> remotes::dev_package_deps(dependencies = > | > | >> | > NA);remotes::install_deps(dependencies = TRUE);if > | (!all(deps$package > | > | >> %in% > | > | >> | > installed.packages())) { message("missing: ", > | > | >> paste(setdiff(deps$package, > | > | >> | > installed.packages()), collapse=", ")); q(status = 1, save = > | "no")}'" > | > | >> | > failed and exited with 1 during . > | > | >> | > Your build has been stopped. > | > | >> | > > | > | >> | > > | > | >> | > Thank you, > | > | >> | > > | > | >> | > Marta > | > | >> | > > | > | >> | > [[alternative HTML version deleted]] > | > | >> | > > | > | >> | > ______________________________________________ > | > | >> | > R-package-devel@r-project.org mailing list > | > | >> | > https://stat.ethz.ch/mailman/listinfo/r-package-devel > | > | >> | > | > | >> | ______________________________________________ > | > | >> | R-package-devel@r-project.org mailing list > | > | >> | https://stat.ethz.ch/mailman/listinfo/r-package-devel > | > | >> > | > | >> -- > | > | >> https://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org > | > | >> > | > | > > | > > | > -- > | > https://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org > > -- > https://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org ______________________________________________ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
