Issues with the install.packages and Compiling in OSx

leandromarino commented 3 years ago

Hey

Firstly, I tried to use the package from install.packages(), and this process went fine but when I try to load some function with RcppAlgos:: just after write that Rstudio crashes even though when I use library(RcppAlgos).

After that, I tried to build from the source with devtools::install_github("jwood000/RcppAlgos") and got this output.

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devtools::install_github("jwood000/RcppAlgos") Downloading GitHub repo jwood000/RcppAlgos@HEAD Skipping 1 packages ahead of CRAN: Rcpp ✓ checking for file ‘/private/var/folders/dc/phdn9gtj0h7dmwcy9jqy3cjh0000gn/T/Rtmp09Spn5/remotesa11b592f028c/jwood000-RcppAlgos-ff30f9f/DESCRIPTION’ ... ─ preparing ‘RcppAlgos’: ✓ checking DESCRIPTION meta-information ... ─ cleaning src ─ checking for LF line-endings in source and make files and shell scripts ─ checking for empty or unneeded directories ─ building ‘RcppAlgos_2.4.2.tar.gz’

installing source package ‘RcppAlgos’ ... using staged installation libs clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c BigNumCount.cpp -o BigNumCount.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c CartesianContainer.cpp -o CartesianContainer.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c CheckReturn.cpp -o CheckReturn.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c CombPermMain.cpp -o CombPermMain.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c CombPermPtr.cpp -o CombPermPtr.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c CombinationResults.cpp -o CombinationResults.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c CombinatoricsApply.cpp -o CombinatoricsApply.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c CombinatoricsCount.cpp -o CombinatoricsCount.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ComboCartesian.cpp -o ComboCartesian.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ComboClass.cpp -o ComboClass.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ComboClassUtils.cpp -o ComboClassUtils.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ComboFunClass.cpp -o ComboFunClass.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ComboGroups.cpp -o ComboGroups.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ComboGroupsUtils.cpp -o ComboGroupsUtils.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ConstraintsGeneral.cpp -o ConstraintsGeneral.o In file included from ConstraintsGeneral.cpp:1: ../inst/include/ConstraintsUtils.h:6:10: fatal error: 'PartitionEnums.h' file not found
include "PartitionEnums.h"
```
 ^~~~~~~~~~~~~~~~~~
```
1 error generated. make: *** [ConstraintsGeneral.o] Error 1 ERROR: compilation failed for package ‘RcppAlgos’
removing ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppAlgos’
restoring previous ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppAlgos’ Warning message: In i.p(...) : installation of package ‘/var/folders/dc/phdn9gtj0h7dmwcy9jqy3cjh0000gn/T//Rtmp09Spn5/filea11b89841c7/RcppAlgos_2.4.2.tar.gz’ had non-zero exit status

jwood000 commented 3 years ago

Hello @leandromarino,

Thanks for reporting. A few questions/comments.

What is your sessionInfo()?
Do you see the crash when using the base R ide?
I have just updated the master branch to reflect the latest changes as seen on CRAN. If point 2 above fails, could you try installing the development version to see if you get the same issues?

Joseph

leandromarino commented 3 years ago

Hey @jwood000 ,

You are welcome.

1) sessionInfo()

R version 4.0.5 (2021-03-31)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur 10.16

Matrix products: default
LAPACK: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
[1] compiler_4.0.5 tools_4.0.5

2) The bomb crash in Rstudio. and

R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (64-bit)

R é um software livre e vem sem GARANTIA ALGUMA.
Você pode redistribuí-lo sob certas circunstâncias.
Digite 'license()' ou 'licence()' para detalhes de distribuição.

  Natural language support but running in an English locale

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Digite 'demo()' para demonstrações, 'help()' para o sistema on-line de ajuda,
ou 'help.start()' para abrir o sistema de ajuda em HTML no seu navegador.
Digite 'q()' para sair do R.

> sessionInfo()
R version 4.0.5 (2021-03-31)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur 10.16

Matrix products: default
BLAS:   /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRblas.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib

locale:
[1] C/UTF-8/C/C/C/C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
[1] compiler_4.0.5
> library(RcppAlgos)

 *** caught segfault ***
address 0x1, cause 'memory not mapped'

Traceback:
 1: Module(module, mustStart = TRUE, where = env)
 2: doTryCatch(return(expr), name, parentenv, handler)
 3: tryCatchOne(expr, names, parentenv, handlers[[1L]])
 4: tryCatchList(expr, classes, parentenv, handlers)
 5: tryCatch(Module(module, mustStart = TRUE, where = env), error = function(e) e)
 6: loadModule(module = "Combo", what = TRUE, env = ns, loadNow = TRUE)
 7: (function (ns) loadModule(module = "Combo", what = TRUE, env = ns, loadNow = TRUE))(<environment>)
 8: doTryCatch(return(expr), name, parentenv, handler)
 9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
10: tryCatchList(expr, classes, parentenv, handlers)
11: tryCatch((function (ns) loadModule(module = "Combo", what = TRUE, env = ns, loadNow = TRUE))(<environment>),     error = function(e) e)
12: eval(substitute(tryCatch(FUN(WHERE), error = function(e) e),     list(FUN = f, WHERE = where)), where)
13: eval(substitute(tryCatch(FUN(WHERE), error = function(e) e),     list(FUN = f, WHERE = where)), where)
14: .doLoadActions(where, attach)
15: methods::cacheMetaData(ns, TRUE, ns)
16: loadNamespace(package, lib.loc)
17: doTryCatch(return(expr), name, parentenv, handler)
18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
19: tryCatchList(expr, classes, parentenv, handlers)
20: tryCatch({    attr(package, "LibPath") <- which.lib.loc    ns <- loadNamespace(package, lib.loc)    env <- attachNamespace(ns, pos = pos, deps, exclude, include.only)}, error = function(e) {    P <- if (!is.null(cc <- conditionCall(e)))         paste(" in", deparse(cc)[1L])    else ""    msg <- gettextf("package or namespace load failed for %s%s:\n %s",         sQuote(package), P, conditionMessage(e))    if (logical.return)         message(paste("Error:", msg), domain = NA)    else stop(msg, call. = FALSE, domain = NA)})
21: library(RcppAlgos)

Possible actions:
1: abort (with core dump, if enabled)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace
Selection:

leandromarino commented 3 years ago

3.

this new version (installing from github) installed and as far as I know its working. I'll try to use the functions. But it compiled and loaded.


R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (64-bit)

R é um software livre e vem sem GARANTIA ALGUMA.
Você pode redistribuí-lo sob certas circunstâncias.
Digite 'license()' ou 'licence()' para detalhes de distribuição.

  Natural language support but running in an English locale

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Digite 'demo()' para demonstrações, 'help()' para o sistema on-line de ajuda,
ou 'help.start()' para abrir o sistema de ajuda em HTML no seu navegador.
Digite 'q()' para sair do R.

> devtools::install_git
devtools::install_git     devtools::install_github  devtools::install_gitlab
> devtools::install_github('jwood000/RcppAlgos')
Downloading GitHub repo jwood000/RcppAlgos@HEAD
Skipping 1 packages ahead of CRAN: Rcpp
   checking for file ‘/private/var/folders/dc/phdn9gtj0h7dmwcy9jqy3cjh0000gn/T/Rtmp✔  checking for file ‘/private/var/folders/dc/phdn9gtj0h7dmwcy9jqy3cjh0000gn/T/RtmpThbwIS/remotesb73d73537258/jwood000-RcppAlgos-c319e05/DESCRIPTION’
─  preparing ‘RcppAlgos’:
✔  checking DESCRIPTION meta-information ...
─  cleaning src
─  checking for LF line-endings in source and make files and shell scripts
─  checking for empty or unneeded directories
─  building ‘RcppAlgos_2.4.3.tar.gz’

* installing *source* package ‘RcppAlgos’ ...
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c BigNumCount.cpp -o BigNumCount.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c CartesianContainer.cpp -o CartesianContainer.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c CheckReturn.cpp -o CheckReturn.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c CombPermMaster.cpp -o CombPermMaster.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c CombPermPtr.cpp -o CombPermPtr.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c CombinationResults.cpp -o CombinationResults.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c CombinatoricsApply.cpp -o CombinatoricsApply.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c CombinatoricsCount.cpp -o CombinatoricsCount.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ComboCartesian.cpp -o ComboCartesian.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ComboClass.cpp -o ComboClass.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ComboClassUtils.cpp -o ComboClassUtils.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ComboFunClass.cpp -o ComboFunClass.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ComboGroups.cpp -o ComboGroups.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ComboGroupsUtils.cpp -o ComboGroupsUtils.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ConstraintsGeneral.cpp -o ConstraintsGeneral.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ConstraintsMaster.cpp -o ConstraintsMaster.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ConstraintsSpecial.cpp -o ConstraintsSpecial.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ConstraintsUtils.cpp -o ConstraintsUtils.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c DivNumSieve.cpp -o DivNumSieve.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c Eratosthenes.cpp -o Eratosthenes.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c EulerPhiSieve.cpp -o EulerPhiSieve.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c GetLowerBound.cpp -o GetLowerBound.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c GmpDependUtils.cpp -o GmpDependUtils.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c ImportExportMPZ.cpp -o ImportExportMPZ.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c MotleyPrimes.cpp -o MotleyPrimes.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c NextCombinatorics.cpp -o NextCombinatorics.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c NextPartitions.cpp -o NextPartitions.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c NthResult.cpp -o NthResult.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c NumThreads.cpp -o NumThreads.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PartitionEsqueAlgo.cpp -o PartitionEsqueAlgo.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PartitionsCounts.cpp -o PartitionsCounts.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PartitionsGeneral.cpp -o PartitionsGeneral.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PartitionsMaster.cpp -o PartitionsMaster.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PermutationResults.cpp -o PermutationResults.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PollardRho.cpp -o PollardRho.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PollardRhoDepends.cpp -o PollardRhoDepends.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PollardRhoUtils.cpp -o PollardRhoUtils.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PrevCombinatorics.cpp -o PrevCombinatorics.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PrimeCount.cpp -o PrimeCount.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PrimeFactorizeSieve.cpp -o PrimeFactorizeSieve.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c PrimeSieve.cpp -o PrimeSieve.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c SampCombPerm.cpp -o SampCombPerm.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c StandardCount.cpp -o StandardCount.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppThread/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c StandardUtils.cpp -o StandardUtils.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o RcppAlgos.so BigNumCount.o CartesianContainer.o CheckReturn.o CombPermMaster.o CombPermPtr.o CombinationResults.o CombinatoricsApply.o CombinatoricsCount.o ComboCartesian.o ComboClass.o ComboClassUtils.o ComboFunClass.o ComboGroups.o ComboGroupsUtils.o ConstraintsGeneral.o ConstraintsMaster.o ConstraintsSpecial.o ConstraintsUtils.o DivNumSieve.o Eratosthenes.o EulerPhiSieve.o GetLowerBound.o GmpDependUtils.o ImportExportMPZ.o MotleyPrimes.o NextCombinatorics.o NextPartitions.o NthResult.o NumThreads.o PartitionEsqueAlgo.o PartitionsCounts.o PartitionsGeneral.o PartitionsMaster.o PermutationResults.o PollardRho.o PollardRhoDepends.o PollardRhoUtils.o PrevCombinatorics.o PrimeCount.o PrimeFactorizeSieve.o PrimeSieve.o RcppExports.o SampCombPerm.o StandardCount.o StandardUtils.o -lgmp -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: dylib (/usr/local/lib/libgmp.dylib) was built for newer macOS version (11.0) than being linked (10.13)
installing to /Library/Frameworks/R.framework/Versions/4.0/Resources/library/00LOCK-RcppAlgos/00new/RcppAlgos/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (RcppAlgos)

jwood000 commented 3 years ago

This is strange indeed.

One thing I will note is that currently, for your version of R 4.0.5, the newer version of RcppAlgos isn't available yet. See here:

https://cran.r-project.org/web/checks/check_results_RcppAlgos.html

It is still showing 2.4.1, however it doesn't address your issue as it is saying that it is building okay.

I will keep an eye on the build progress and when CRAN has some more information, I will be sure to ping you.

Thanks again

leandromarino commented 3 years ago

Thanks a lot. In my research, I needed combinatorial sampling. I just used the function ands It's working fine.

Best Leandro

jwood000 / RcppAlgos

Issues with the install.packages and Compiling in OSx #21

include "PartitionEnums.h"