date:20240112

Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

2024-01-12 Thread Serge


Hi Ivan,

After somme minor midficiations, I make a try on the winbuilder site.
I was able to build the archive with the static library
but I get again a Bad address error. You can have a look to

https://win-builder.r-project.org/bw47qsMX3HTd/00install.out

Thanks for your help,
Serge

Le 12/01/2024 à 20:14, Ivan Krylov a écrit :

В Fri, 12 Jan 2024 19:09:29 +0100
Serge  пишет:


I updated the package rtkore one month ago, fixing a compilation
problem on windows devel platform.

MixAll has a dependency to rtkore. Thus, I suspect that the error
reported below is due to the presence of the old version of rtkore on
the pretest infrastructure of the CRAN.


:

/usr/bin/make -C projects/Clustering/src/
make[2]: Entering directory 
'/d/temp/RtmpYJkDTJ/R.INSTALL316dc7c0f48e6/MixAll/inst/projects/Clustering/src'
g++ -std=gnu++17  -I"D:/RCompile/recent/R/include" -DNDEBUG `D:/RCompile/recent/R/bin/Rscript -e 
"rtkore:::CppFlags()"`  -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' 
-I'D:/RCompile/CRANpkg/lib/4.4/rtkore/include'   -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include"
`D:/RCompile/recent/R/bin/Rscript -e "rtkore:::CxxFlags()"` -I../inst/projects/ -I../inst/include/ -fopenmp   
-pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -I../../../projects/ -I../../../include/ 
STK_CategoricalParameters.cpp -c -o ../../../bin/STK_CategoricalParameters.o
/bin/sh: line 1: /x86_64-w64-mingw32.static.posix/bin/g++: Bad address
make[2]: *** [makefile:54: ../../../bin/STK_CategoricalParameters.o] Error 126

RTools uses Cygwin features to emulate the presence of certain virtual
paths; /x86_64-w64-mingw32.static.posix/bin/g++ actually exists and is
transparently mapped to
d:/rtools43/x86_64-w64-mingw32.static.posix/bin/g++.exe:

User@WINMACHINE MSYS ~
$ /x86_64-w64-mingw32.static.posix/bin/g++ --version
g++.exe (GCC) 12.2.0

The "Bad address" here means that /bin/sh got an EFAULT while trying to
launch g++.exe:
https://stat.ethz.ch/pipermail/r-package-devel/2023q4/010223.html

Unless there is something extremely weird in the command line arguments
returned by Rscript -e "rtkore:::CxxFlags()" that causes the process to
fail to launch (in my opinion, very unlikely, but can you print them
from your compilation process just in case?), I would be looking for
problems elsewhere.

In particular, the problem cannot be in having rtkore installed that is
one version too old, because you only changed Makevars in that version,
and your package MixAll doesn't use the Makevars from a different
source package.



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Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

2024-01-12 Thread Serge

Hello Duncan,

Yes, you're right, I'll do that !
Serge

Le 12/01/2024 à 19:47, Duncan Murdoch a écrit :
I don't know if you can find out which rtkore version was installed, but your package should work 
with any rtkore version if you haven't declared a dependency on a particular version.  So the 
simplest thing is just to declare that you depend on "rtkore (>= x.y.z)" where x.y.z has the recent 
fix.

Duncan Murdoch

On 12/01/2024 1:09 p.m., Serge wrote:

I'm the mainteneur of the package MixAll.

This package has a dependency to the package rtkore (whom I'm the mainteneur 
too).
I updated the package rtkore one month ago, fixing a compilation problem on 
windows devel platform.

MixAll has a dependency to rtkore. Thus, I suspect that the error reported 
below is due to
the presence of the old version of rtkore on the pretest infrastructure of the 
CRAN.

My question: is-it possible to know what is the version of rtkore installed on this pretest 
platform ?

(and the https://win-builder.r-project.org/ site too, as I get the same error 
on this site).
Il would certainly save me many tries, my suspicion should be true.

Thanks,
Serge

Dear maintainer,
package MixAll_1.5.4.tar.gz does not pass the incoming checks automatically, please see the 
following pre-tests:
Windows: 

Status: 1 ERROR
Debian: 

Status: 1 NOTE

Last released version's CRAN status: OK: 1, NOTE: 8, WARNING: 2, ERROR: 1
See: 

CRAN Web: 

Please fix all problems and resubmit a fixed version via the webform.
If you are not sure how to fix the problems shown, please ask for help on the R-package-devel 
mailing list:

  > 
If you are fairly certain the rejection is a false positive, please reply-all to this message and 
explain.

More details are given in the directory:

  > 

The files will be removed after roughly 7 days.

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Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

2024-01-12 Thread Serge


Hello Ivan,

Here the output of Cxxflags on my local computer

> rtkore::CppFlags()
-DIS_RTKPP_LIB -DSTKUSELAPACK
> rtkore::CxxFlags()
-I/home/iovleff/R/x86_64-pc-linux-gnu-library/4.3/rtkore/include 
-I/home/iovleff/R/x86_64-pc-linux-gnu-library/4.3/rtkore/projects



and here the code of the functions used internally by CxxFlags() (cpp11 is 
FALSE by default)

# Provide compiler flags -- i.e. -I/path/to/RTKpp.h
# @keywords internal
.rtkoreCxxFlags <- function(cpp11)
{
  path1 <- .rtkore.system.file( "include" )
  path2 <- .rtkore.system.file( "projects" )
  if (.Platform$OS.type=="windows")
  {
path1 <- .asBuildPath(path1);
path2 <- .asBuildPath(path2);
  }
  paste("-I", path1, " -I", path2, if (cpp11) " -std=c++11 " else "", sep="")
}
###
# Adapted from Rcpp package
###
# @rdname rtkoreFlags
# @keywords internal
.asBuildPath <- function(path)
{
  if (.Platform$OS.type == "windows")
  {
path <- normalizePath(path)
if (grepl(' ', path, fixed=TRUE))
  path <- utils::shortPathName(path)
path <- gsub("", "/", path)
  }
  return(path)
}


Le 12/01/2024 à 20:14, Ivan Krylov a écrit :

В Fri, 12 Jan 2024 19:09:29 +0100
Serge  пишет:


I updated the package rtkore one month ago, fixing a compilation
problem on windows devel platform.

MixAll has a dependency to rtkore. Thus, I suspect that the error
reported below is due to the presence of the old version of rtkore on
the pretest infrastructure of the CRAN.


:

/usr/bin/make -C projects/Clustering/src/
make[2]: Entering directory 
'/d/temp/RtmpYJkDTJ/R.INSTALL316dc7c0f48e6/MixAll/inst/projects/Clustering/src'
g++ -std=gnu++17  -I"D:/RCompile/recent/R/include" -DNDEBUG `D:/RCompile/recent/R/bin/Rscript -e 
"rtkore:::CppFlags()"`  -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' 
-I'D:/RCompile/CRANpkg/lib/4.4/rtkore/include'   -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include"
`D:/RCompile/recent/R/bin/Rscript -e "rtkore:::CxxFlags()"` -I../inst/projects/ -I../inst/include/ -fopenmp   
-pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -I../../../projects/ -I../../../include/ 
STK_CategoricalParameters.cpp -c -o ../../../bin/STK_CategoricalParameters.o
/bin/sh: line 1: /x86_64-w64-mingw32.static.posix/bin/g++: Bad address
make[2]: *** [makefile:54: ../../../bin/STK_CategoricalParameters.o] Error 126

RTools uses Cygwin features to emulate the presence of certain virtual
paths; /x86_64-w64-mingw32.static.posix/bin/g++ actually exists and is
transparently mapped to
d:/rtools43/x86_64-w64-mingw32.static.posix/bin/g++.exe:

User@WINMACHINE MSYS ~
$ /x86_64-w64-mingw32.static.posix/bin/g++ --version
g++.exe (GCC) 12.2.0

The "Bad address" here means that /bin/sh got an EFAULT while trying to
launch g++.exe:
https://stat.ethz.ch/pipermail/r-package-devel/2023q4/010223.html

Unless there is something extremely weird in the command line arguments
returned by Rscript -e "rtkore:::CxxFlags()" that causes the process to
fail to launch (in my opinion, very unlikely, but can you print them
from your compilation process just in case?), I would be looking for
problems elsewhere.

In particular, the problem cannot be in having rtkore installed that is
one version too old, because you only changed Makevars in that version,
and your package MixAll doesn't use the Makevars from a different
source package.



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Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

2024-01-12 Thread Ivan Krylov via R-package-devel

В Fri, 12 Jan 2024 19:09:29 +0100
Serge  пишет:

> I updated the package rtkore one month ago, fixing a compilation
> problem on windows devel platform.
> 
> MixAll has a dependency to rtkore. Thus, I suspect that the error
> reported below is due to the presence of the old version of rtkore on
> the pretest infrastructure of the CRAN.

:

/usr/bin/make -C projects/Clustering/src/
make[2]: Entering directory 
'/d/temp/RtmpYJkDTJ/R.INSTALL316dc7c0f48e6/MixAll/inst/projects/Clustering/src'
g++ -std=gnu++17  -I"D:/RCompile/recent/R/include" -DNDEBUG 
`D:/RCompile/recent/R/bin/Rscript -e "rtkore:::CppFlags()"`  
-I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' 
-I'D:/RCompile/CRANpkg/lib/4.4/rtkore/include'   
-I"d:/rtools43/x86_64-w64-mingw32.static.posix/include"
`D:/RCompile/recent/R/bin/Rscript -e "rtkore:::CxxFlags()"` -I../inst/projects/ 
-I../inst/include/ -fopenmp   -pedantic -O2 -Wall  -mfpmath=sse -msse2 
-mstackrealign  -I../../../projects/ -I../../../include/ 
STK_CategoricalParameters.cpp -c -o ../../../bin/STK_CategoricalParameters.o
/bin/sh: line 1: /x86_64-w64-mingw32.static.posix/bin/g++: Bad address
make[2]: *** [makefile:54: ../../../bin/STK_CategoricalParameters.o] Error 126

RTools uses Cygwin features to emulate the presence of certain virtual
paths; /x86_64-w64-mingw32.static.posix/bin/g++ actually exists and is
transparently mapped to
d:/rtools43/x86_64-w64-mingw32.static.posix/bin/g++.exe:

User@WINMACHINE MSYS ~
$ /x86_64-w64-mingw32.static.posix/bin/g++ --version
g++.exe (GCC) 12.2.0

The "Bad address" here means that /bin/sh got an EFAULT while trying to
launch g++.exe:
https://stat.ethz.ch/pipermail/r-package-devel/2023q4/010223.html

Unless there is something extremely weird in the command line arguments
returned by Rscript -e "rtkore:::CxxFlags()" that causes the process to
fail to launch (in my opinion, very unlikely, but can you print them
from your compilation process just in case?), I would be looking for
problems elsewhere.

In particular, the problem cannot be in having rtkore installed that is
one version too old, because you only changed Makevars in that version,
and your package MixAll doesn't use the Makevars from a different
source package.

-- 
Best regards,
Ivan

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Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

2024-01-12 Thread Duncan Murdoch

I don't know if you can find out which rtkore version was installed, but 
your package should work with any rtkore version if you haven't declared 
a dependency on a particular version.  So the simplest thing is just to 
declare that you depend on "rtkore (>= x.y.z)" where x.y.z has the 
recent fix.

Duncan Murdoch

On 12/01/2024 1:09 p.m., Serge wrote:

I'm the mainteneur of the package MixAll.

This package has a dependency to the package rtkore (whom I'm the mainteneur 
too).
I updated the package rtkore one month ago, fixing a compilation problem on 
windows devel platform.

MixAll has a dependency to rtkore. Thus, I suspect that the error reported 
below is due to
the presence of the old version of rtkore on the pretest infrastructure of the 
CRAN.

My question: is-it possible to know what is the version of rtkore installed on 
this pretest platform ?
(and the https://win-builder.r-project.org/ site too, as I get the same error 
on this site).
Il would certainly save me many tries, my suspicion should be true.

Thanks,
Serge

Dear maintainer,

package MixAll_1.5.4.tar.gz does not pass the incoming checks automatically, please see the following pre-tests:

Windows: 

Status: 1 ERROR
Debian: 

Status: 1 NOTE

Last released version's CRAN status: OK: 1, NOTE: 8, WARNING: 2, ERROR: 1
See: 

CRAN Web: 

Please fix all problems and resubmit a fixed version via the webform.
If you are not sure how to fix the problems shown, please ask for help on the 
R-package-devel mailing list:

  > 

If you are fairly certain the rejection is a false positive, please reply-all 
to this message and explain.

More details are given in the directory:

  > 

The files will be removed after roughly 7 days.

__
R-package-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-package-devel

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[R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

2024-01-12 Thread Serge


I'm the mainteneur of the package MixAll.

This package has a dependency to the package rtkore (whom I'm the mainteneur 
too).
I updated the package rtkore one month ago, fixing a compilation problem on 
windows devel platform.

MixAll has a dependency to rtkore. Thus, I suspect that the error reported 
below is due to
the presence of the old version of rtkore on the pretest infrastructure of the 
CRAN.

My question: is-it possible to know what is the version of rtkore installed on 
this pretest platform ?
(and the https://win-builder.r-project.org/ site too, as I get the same error 
on this site).
Il would certainly save me many tries, my suspicion should be true.

Thanks,
Serge




Dear maintainer,
 
package MixAll_1.5.4.tar.gz does not pass the incoming checks automatically, please see the following pre-tests:

Windows: 

Status: 1 ERROR
Debian: 

Status: 1 NOTE

Last released version's CRAN status: OK: 1, NOTE: 8, WARNING: 2, ERROR: 1
See: 

CRAN Web: 

Please fix all problems and resubmit a fixed version via the webform.
If you are not sure how to fix the problems shown, please ask for help on the 
R-package-devel mailing list:

> 

If you are fairly certain the rejection is a false positive, please reply-all 
to this message and explain.
 

More details are given in the directory:

> 


The files will be removed after roughly 7 days.


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Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

Re: [R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

[R-pkg-devel] Does dependencies up to date on the pretest CRAN infrastructure

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