Re: [R-pkg-devel] packaging biosig for R
On 16.03.2020 10:58, Duncan Murdoch wrote: On 16/03/2020 3:00 a.m., Alois Schlögl wrote: Thanks for your response. For *nix (Linux, MacOSX), this can be achieved. For windows, currently the only way to compile libbiosig is through mingw-cross-compiler environment (MXE) [1] or in cygwin. Currently, libbiosig does not compile with with VC++for various reasons, and libbiosig has some hard dependencies (libiconv, suitesparse, dcmtk), (there are dependencies on libb64, tinyxml), I'm wondering what the best approach would be. - Would it be ok, if libbiosig.dll is distributed in binary form ? I think the answer to that is that it would not be allowed, but I'm not part of CRAN. - Or would you accept a package that currently runs only on MacOSX/Homebrew and Linux but not on Windows ? There are some packages like that on CRAN, but it is certainly discouraged. Bioconductor has its own rules; you might want to ask there, given the subject matter of your package. Thanks, Duncan, same from here, just to confrim from a "part of CRAN" point of view. Best, Uwe Ligges Duncan Murdoch Alois Schlögl [1] https://github.com/schloegl/mxe Am 3/16/20 um 2:08 AM schrieb Duncan Murdoch: I suspect the question in this case depends on the availability of libbiosig. If CRAN test machines don't have that and its source isn't included in the R package, then it will fail on initial install. CRAN doesn't have a lot of resources to install difficult libraries; I have no idea if that applies in this case. I believe the most robust way to handle this sort of package is to have a configure script that looks for the lib on the installing machine, and uses that copy if found, otherwise compiles it from source. Duncan Murdoch On 15/03/2020 3:41 p.m., Jeff Newmiller wrote: I am just a lurker (not representing CRAN) but I am having a hard time understanding your question. Binary packages are a convenience for users, not a method for submitting packages. When you have an R package accepted it is accepted in source format. If it doesn't exclude support for Windows or MacOSX then it will (in time) be compiled into a binary form for distribution in addition to being distributed is source form. As the maintainer, your responsibility is merely to confirm that your source package is properly configured to be built in binary form before you submit it to CRAN. This is normally accomplished by successfully building it as binary in a testing environment. There are various guides out there that can be helpful in accomplishing this, e.g. [1]. [1] https://kbroman.org/pkg_primer/pages/cran.htm On March 15, 2020 1:07:41 AM PDT, "Alois Schlögl" wrote: Dear R packagers, the Biosig project [1] supports reading of about 50 different data format [2]. Recently, a language binding to R was added, because a user of Biosig asked for it. I've read the policy [3], and it seems the biosig would qualify as binary package. The underlying library (libbiosig) can be installed - on linux from source, or through debian/ubuntu package - on MacOSX through Homebrew. - for Windows I'm using MXE mingw-cross-compiler environment to build libbiosig.dll Would it be feasible to provide a package of biosig on cran ? What need to be considered ? Kind regards Alois [1] http://biosig.sourceforge.net/download.html [2] http://pub.ist.ac.at/~schloegl/biosig/TESTED [3] https://cran.r-project.org/web/packages/policies.html __ 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 __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] packaging biosig for R
On 16/03/2020 3:00 a.m., Alois Schlögl wrote: Thanks for your response. For *nix (Linux, MacOSX), this can be achieved. For windows, currently the only way to compile libbiosig is through mingw-cross-compiler environment (MXE) [1] or in cygwin. Currently, libbiosig does not compile with with VC++for various reasons, and libbiosig has some hard dependencies (libiconv, suitesparse, dcmtk), (there are dependencies on libb64, tinyxml), I'm wondering what the best approach would be. - Would it be ok, if libbiosig.dll is distributed in binary form ? I think the answer to that is that it would not be allowed, but I'm not part of CRAN. - Or would you accept a package that currently runs only on MacOSX/Homebrew and Linux but not on Windows ? There are some packages like that on CRAN, but it is certainly discouraged. Bioconductor has its own rules; you might want to ask there, given the subject matter of your package. Duncan Murdoch Alois Schlögl [1] https://github.com/schloegl/mxe Am 3/16/20 um 2:08 AM schrieb Duncan Murdoch: I suspect the question in this case depends on the availability of libbiosig. If CRAN test machines don't have that and its source isn't included in the R package, then it will fail on initial install. CRAN doesn't have a lot of resources to install difficult libraries; I have no idea if that applies in this case. I believe the most robust way to handle this sort of package is to have a configure script that looks for the lib on the installing machine, and uses that copy if found, otherwise compiles it from source. Duncan Murdoch On 15/03/2020 3:41 p.m., Jeff Newmiller wrote: I am just a lurker (not representing CRAN) but I am having a hard time understanding your question. Binary packages are a convenience for users, not a method for submitting packages. When you have an R package accepted it is accepted in source format. If it doesn't exclude support for Windows or MacOSX then it will (in time) be compiled into a binary form for distribution in addition to being distributed is source form. As the maintainer, your responsibility is merely to confirm that your source package is properly configured to be built in binary form before you submit it to CRAN. This is normally accomplished by successfully building it as binary in a testing environment. There are various guides out there that can be helpful in accomplishing this, e.g. [1]. [1] https://kbroman.org/pkg_primer/pages/cran.htm On March 15, 2020 1:07:41 AM PDT, "Alois Schlögl" wrote: Dear R packagers, the Biosig project [1] supports reading of about 50 different data format [2]. Recently, a language binding to R was added, because a user of Biosig asked for it. I've read the policy [3], and it seems the biosig would qualify as binary package. The underlying library (libbiosig) can be installed - on linux from source, or through debian/ubuntu package - on MacOSX through Homebrew. - for Windows I'm using MXE mingw-cross-compiler environment to build libbiosig.dll Would it be feasible to provide a package of biosig on cran ? What need to be considered ? Kind regards Alois [1] http://biosig.sourceforge.net/download.html [2] http://pub.ist.ac.at/~schloegl/biosig/TESTED [3] https://cran.r-project.org/web/packages/policies.html __ 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
Re: [R-pkg-devel] packaging biosig for R
Thanks for your response. For *nix (Linux, MacOSX), this can be achieved. For windows, currently the only way to compile libbiosig is through mingw-cross-compiler environment (MXE) [1] or in cygwin. Currently, libbiosig does not compile with with VC++for various reasons, and libbiosig has some hard dependencies (libiconv, suitesparse, dcmtk), (there are dependencies on libb64, tinyxml), I'm wondering what the best approach would be. - Would it be ok, if libbiosig.dll is distributed in binary form ? - Or would you accept a package that currently runs only on MacOSX/Homebrew and Linux but not on Windows ? Alois Schlögl [1] https://github.com/schloegl/mxe Am 3/16/20 um 2:08 AM schrieb Duncan Murdoch: > I suspect the question in this case depends on the availability of > libbiosig. If CRAN test machines don't have that and its source isn't > included in the R package, then it will fail on initial install. CRAN > doesn't have a lot of resources to install difficult libraries; I have > no idea if that applies in this case. > > I believe the most robust way to handle this sort of package is to > have a configure script that looks for the lib on the installing > machine, and uses that copy if found, otherwise compiles it from source. > > Duncan Murdoch > > > > On 15/03/2020 3:41 p.m., Jeff Newmiller wrote: >> I am just a lurker (not representing CRAN) but I am having a hard >> time understanding your question. >> >> Binary packages are a convenience for users, not a method for >> submitting packages. When you have an R package accepted it is >> accepted in source format. >> If it doesn't exclude support for Windows or MacOSX then it will (in >> time) be compiled into a binary form for distribution in addition to >> being distributed is source form. >> >> As the maintainer, your responsibility is merely to confirm that your >> source package is properly configured to be built in binary form >> before you submit it to CRAN. This is normally accomplished by >> successfully building it as binary in a testing environment. There >> are various guides out there that can be helpful in accomplishing >> this, e.g. [1]. >> >> [1] https://kbroman.org/pkg_primer/pages/cran.htm >> >> >> On March 15, 2020 1:07:41 AM PDT, "Alois Schlögl" >> wrote: >>> >>> Dear R packagers, >>> >>> >>> the Biosig project [1] supports reading of about 50 different data >>> format [2]. Recently, a language binding to R was added, because a user >>> of Biosig asked for it. >>> >>> >>> I've read the policy [3], and it seems the biosig would qualify as >>> binary package. The underlying library (libbiosig) can be installed >>> >>> - on linux from source, or through debian/ubuntu package >>> >>> - on MacOSX through Homebrew. >>> >>> - for Windows I'm using MXE mingw-cross-compiler environment to build >>> libbiosig.dll >>> >>> >>> Would it be feasible to provide a package of biosig on cran ? What need >>> to be considered ? >>> >>> >>> Kind regards >>> >>> Alois >>> >>> >>> >>> [1] http://biosig.sourceforge.net/download.html >>> >>> [2] http://pub.ist.ac.at/~schloegl/biosig/TESTED >>> >>> [3] https://cran.r-project.org/web/packages/policies.html >>> >>> __ >>> 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
Re: [R-pkg-devel] packaging biosig for R
I suspect the question in this case depends on the availability of libbiosig. If CRAN test machines don't have that and its source isn't included in the R package, then it will fail on initial install. CRAN doesn't have a lot of resources to install difficult libraries; I have no idea if that applies in this case. I believe the most robust way to handle this sort of package is to have a configure script that looks for the lib on the installing machine, and uses that copy if found, otherwise compiles it from source. Duncan Murdoch On 15/03/2020 3:41 p.m., Jeff Newmiller wrote: I am just a lurker (not representing CRAN) but I am having a hard time understanding your question. Binary packages are a convenience for users, not a method for submitting packages. When you have an R package accepted it is accepted in source format. If it doesn't exclude support for Windows or MacOSX then it will (in time) be compiled into a binary form for distribution in addition to being distributed is source form. As the maintainer, your responsibility is merely to confirm that your source package is properly configured to be built in binary form before you submit it to CRAN. This is normally accomplished by successfully building it as binary in a testing environment. There are various guides out there that can be helpful in accomplishing this, e.g. [1]. [1] https://kbroman.org/pkg_primer/pages/cran.htm On March 15, 2020 1:07:41 AM PDT, "Alois Schlögl" wrote: Dear R packagers, the Biosig project [1] supports reading of about 50 different data format [2]. Recently, a language binding to R was added, because a user of Biosig asked for it. I've read the policy [3], and it seems the biosig would qualify as binary package. The underlying library (libbiosig) can be installed - on linux from source, or through debian/ubuntu package - on MacOSX through Homebrew. - for Windows I'm using MXE mingw-cross-compiler environment to build libbiosig.dll Would it be feasible to provide a package of biosig on cran ? What need to be considered ? Kind regards Alois [1] http://biosig.sourceforge.net/download.html [2] http://pub.ist.ac.at/~schloegl/biosig/TESTED [3] https://cran.r-project.org/web/packages/policies.html __ 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
Re: [R-pkg-devel] packaging biosig for R
I am just a lurker (not representing CRAN) but I am having a hard time understanding your question. Binary packages are a convenience for users, not a method for submitting packages. When you have an R package accepted it is accepted in source format. If it doesn't exclude support for Windows or MacOSX then it will (in time) be compiled into a binary form for distribution in addition to being distributed is source form. As the maintainer, your responsibility is merely to confirm that your source package is properly configured to be built in binary form before you submit it to CRAN. This is normally accomplished by successfully building it as binary in a testing environment. There are various guides out there that can be helpful in accomplishing this, e.g. [1]. [1] https://kbroman.org/pkg_primer/pages/cran.html On March 15, 2020 1:07:41 AM PDT, "Alois Schlögl" wrote: > >Dear R packagers, > > >the Biosig project [1] supports reading of about 50 different data >format [2]. Recently, a language binding to R was added, because a user >of Biosig asked for it. > > >I've read the policy [3], and it seems the biosig would qualify as >binary package. The underlying library (libbiosig) can be installed > >- on linux from source, or through debian/ubuntu package > >- on MacOSX through Homebrew. > >- for Windows I'm using MXE mingw-cross-compiler environment to build >libbiosig.dll > > >Would it be feasible to provide a package of biosig on cran ? What need >to be considered ? > > >Kind regards > > Alois > > > >[1] http://biosig.sourceforge.net/download.html > >[2] http://pub.ist.ac.at/~schloegl/biosig/TESTED > >[3] https://cran.r-project.org/web/packages/policies.html > >__ >R-package-devel@r-project.org mailing list >https://stat.ethz.ch/mailman/listinfo/r-package-devel -- Sent from my phone. Please excuse my brevity. __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
