Run revdepcheck::revdep_details(, "AdhereR")
for more info
installed size is 6.2Mb
sub-directories of 1Mb or more:
doc 3.7Mb
Run revdepcheck::revdep_details(, "ANN2")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/ANN2/new/ANN2.Rcheck/00install.out’ for details.
* installing *source* package ‘ANN2’ ...
** package ‘ANN2’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c ANN.cpp -o ANN.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c Activations.cpp -o Activations.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c Layer.cpp -o Layer.o
...
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c test_utils.cpp -o test_utils.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c utils.cpp -o utils.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o ANN2.so ANN.o Activations.o Layer.o Loss.o Optimizer.o RcppExports.o arma_serialization.o test-cpp-activations.o test-cpp-loss.o test-cpp-optimizers.o test-cpp-utils.o test-runner.o test_utils.o utils.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [ANN2.so] Error 1
ERROR: compilation failed for package ‘ANN2’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/ANN2/new/ANN2.Rcheck/ANN2’
* installing *source* package ‘ANN2’ ...
** package ‘ANN2’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c ANN.cpp -o ANN.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c Activations.cpp -o Activations.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c Layer.cpp -o Layer.o
...
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c test_utils.cpp -o test_utils.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/RcppArmadillo/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ANN2/testthat/include' -I/opt/homebrew/include -I../inst/ -fPIC -I/opt/homebrew/include -c utils.cpp -o utils.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o ANN2.so ANN.o Activations.o Layer.o Loss.o Optimizer.o RcppExports.o arma_serialization.o test-cpp-activations.o test-cpp-loss.o test-cpp-optimizers.o test-cpp-utils.o test-runner.o test_utils.o utils.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [ANN2.so] Error 1
ERROR: compilation failed for package ‘ANN2’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/ANN2/old/ANN2.Rcheck/ANN2’
Run revdepcheck::revdep_details(, "APL")
for more info
checking package dependencies ... ERROR ``` Packages required but not available: 'SingleCellExperiment', 'SummarizedExperiment', 'topGO', 'org.Hs.eg.db', 'org.Mm.eg.db'
Packages suggested but not available: 'scRNAseq', 'scater'
The suggested packages are required for a complete check. Checking can be attempted without them by setting the environment variable R_CHECK_FORCE_SUGGESTS to a false value.
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "astrochron")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/astrochron/new/astrochron.Rcheck/00install.out’ for details.
* installing *source* package ‘astrochron’ ...
** package ‘astrochron’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
sh: /opt/gfortran/bin/gfortran: No such file or directory
using SDK: ‘MacOSX13.3.sdk’
/opt/gfortran/bin/gfortran -arch arm64 -fPIC -Wall -g -O2 -c EHA_Rv6d.f -o EHA_Rv6d.o
make: /opt/gfortran/bin/gfortran: No such file or directory
make: *** [EHA_Rv6d.o] Error 1
ERROR: compilation failed for package ‘astrochron’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/astrochron/new/astrochron.Rcheck/astrochron’
* installing *source* package ‘astrochron’ ...
** package ‘astrochron’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
sh: /opt/gfortran/bin/gfortran: No such file or directory
using SDK: ‘MacOSX13.3.sdk’
/opt/gfortran/bin/gfortran -arch arm64 -fPIC -Wall -g -O2 -c EHA_Rv6d.f -o EHA_Rv6d.o
make: /opt/gfortran/bin/gfortran: No such file or directory
make: *** [EHA_Rv6d.o] Error 1
ERROR: compilation failed for package ‘astrochron’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/astrochron/old/astrochron.Rcheck/astrochron’
Run revdepcheck::revdep_details(, "bayesdfa")
for more info
checking installed package size ... NOTE
installed size is 6.2Mb
sub-directories of 1Mb or more:
doc 1.0Mb
libs 4.7Mb
checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘RcppParallel’ ‘rstantools’
All declared Imports should be used.
checking for GNU extensions in Makefiles ... NOTE
GNU make is a SystemRequirements.
Run revdepcheck::revdep_details(, "bioRad")
for more info
installed size is 5.2Mb
sub-directories of 1Mb or more:
data 1.6Mb
extdata 1.7Mb
Run revdepcheck::revdep_details(, "Cardinal")
for more info
checking whether package ‘Cardinal’ can be installed ... WARNING
Found the following significant warnings:
imzML.cpp:982:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:985:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1009:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1013:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1017:4: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1022:4: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1027:4: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1032:4: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1063:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1067:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1071:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1101:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1105:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
imzML.cpp:1109:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
pugixml.cpp:4629:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
pugixml.cpp:4638:3: warning: 'sprintf' is deprecated: This function is provided for compatibility reasons only. Due to security concerns inherent in the design of sprintf(3), it is highly recommended that you use snprintf(3) instead. [-Wdeprecated-declarations]
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/Cardinal/new/Cardinal.Rcheck/00install.out’ for details.
checking compiled code ... WARNING ``` File ‘Cardinal/libs/Cardinal.so’: Found ‘_sprintf’, possibly from ‘sprintf’ (C) Objects: ‘imzML.o’, ‘pugixml.o’
Compiled code should not call entry points which might terminate R nor write to stdout/stderr instead of to the console, nor use Fortran I/O nor system RNGs nor [v]sprintf.
See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual. ```
checking installed package size ... NOTE
installed size is 8.0Mb
sub-directories of 1Mb or more:
R 3.1Mb
doc 4.2Mb
checking Rd files ... NOTE
checkRd: (-1) topFeatures-methods.Rd:73: Escaped LaTeX specials: \&
Run revdepcheck::revdep_details(, "ccdf")
for more info
Namespace in Imports field not imported from: ‘statmod’
All declared Imports should be used.
Run revdepcheck::revdep_details(, "cgalMeshes")
for more info
checking installed package size ... NOTE
installed size is 12.8Mb
sub-directories of 1Mb or more:
extdata 1.4Mb
libs 10.9Mb
checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘utils’
All declared Imports should be used.
Run revdepcheck::revdep_details(, "cholera")
for more info
installed size is 5.6Mb
sub-directories of 1Mb or more:
doc 1.5Mb
help 2.2Mb
Run revdepcheck::revdep_details(, "ciftiTools")
for more info
installed size is 7.5Mb
sub-directories of 1Mb or more:
R 2.7Mb
extdata 4.3Mb
Run revdepcheck::revdep_details(, "clinUtils")
for more info
installed size is 6.4Mb
sub-directories of 1Mb or more:
doc 5.4Mb
Run revdepcheck::revdep_details(, "cubeview")
for more info
'LazyData' is specified without a 'data' directory
Run revdepcheck::revdep_details(, "dearseq")
for more info
checking package dependencies ... ERROR ``` Package suggested but not available: ‘SummarizedExperiment’
The suggested packages are required for a complete check. Checking can be attempted without them by setting the environment variable R_CHECK_FORCE_SUGGESTS to a false value.
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "detourr")
for more info
installed size is 5.7Mb
sub-directories of 1Mb or more:
data 1.8Mb
htmlwidgets 3.7Mb
Run revdepcheck::revdep_details(, "diffUTR")
for more info
checking package dependencies ... ERROR ``` Packages required but not available: 'SummarizedExperiment', 'DEXSeq', 'ensembldb'
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "DirStats")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/DirStats/new/DirStats.Rcheck/00install.out’ for details.
* installing *source* package ‘DirStats’ ...
** package ‘DirStats’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
sh: /opt/gfortran/bin/gfortran: No such file or directory
using SDK: ‘MacOSX13.3.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c init.c -o init.o
/opt/gfortran/bin/gfortran -arch arm64 -fPIC -Wall -g -O2 -c kde_dir_vmf.f90 -o kde_dir_vmf.o
make: /opt/gfortran/bin/gfortran: No such file or directory
make: *** [kde_dir_vmf.o] Error 1
ERROR: compilation failed for package ‘DirStats’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/DirStats/new/DirStats.Rcheck/DirStats’
* installing *source* package ‘DirStats’ ...
** package ‘DirStats’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
sh: /opt/gfortran/bin/gfortran: No such file or directory
using SDK: ‘MacOSX13.3.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c init.c -o init.o
/opt/gfortran/bin/gfortran -arch arm64 -fPIC -Wall -g -O2 -c kde_dir_vmf.f90 -o kde_dir_vmf.o
make: /opt/gfortran/bin/gfortran: No such file or directory
make: *** [kde_dir_vmf.o] Error 1
ERROR: compilation failed for package ‘DirStats’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/DirStats/old/DirStats.Rcheck/DirStats’
Run revdepcheck::revdep_details(, "eaf")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/eaf/new/eaf.Rcheck/00install.out’ for details.
* installing *source* package ‘eaf’ ...
** package ‘eaf’ successfully unpacked and MD5 sums checked
** using staged installation
checking for gsl-config... /opt/homebrew/bin/gsl-config
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX13.3.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/Cellar/gsl/2.7.1/include -DR_PACKAGE -DDEBUG=0 -I./eaf/ -I./mo-tools/ -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c eaf/avl.c -o eaf/avl.o
...
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/Cellar/gsl/2.7.1/include -DR_PACKAGE -DDEBUG=0 -I./eaf/ -I./mo-tools/ -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c Rhv.c -o Rhv.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/Cellar/gsl/2.7.1/include -DR_PACKAGE -DDEBUG=0 -I./eaf/ -I./mo-tools/ -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c Rnondominated.c -o Rnondominated.o
clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o eaf.so eaf/avl.o eaf/eaf3d.o eaf/eaf.o eaf/io.o mo-tools/hv_contrib.o mo-tools/hv.o mo-tools/pareto.o mo-tools/whv.o mo-tools/whv_hype.o init.o Reaf.o Repsilon.o Rhv.o Rnondominated.o -L/opt/homebrew/Cellar/gsl/2.7.1/lib -lgsl -lgslcblas -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
make -C eaf all march=none CC="clang -arch arm64" CFLAGS="-I/opt/homebrew/include " OPT_CFLAGS="" WARN_CFLAGS="" DEBUG=0 EXE=
---> Removing /Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/ Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/eaf/new/eaf.Rcheck/00_pkg_src/eaf/src/eaf//eaf <---
rm: /Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/: is a directory
make[1]: *** [clean] Error 1
make: *** [all] Error 2
ERROR: compilation failed for package ‘eaf’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/eaf/new/eaf.Rcheck/eaf’
* installing *source* package ‘eaf’ ...
** package ‘eaf’ successfully unpacked and MD5 sums checked
** using staged installation
checking for gsl-config... /opt/homebrew/bin/gsl-config
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX13.3.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/Cellar/gsl/2.7.1/include -DR_PACKAGE -DDEBUG=0 -I./eaf/ -I./mo-tools/ -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c eaf/avl.c -o eaf/avl.o
...
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/Cellar/gsl/2.7.1/include -DR_PACKAGE -DDEBUG=0 -I./eaf/ -I./mo-tools/ -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c Rhv.c -o Rhv.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/Cellar/gsl/2.7.1/include -DR_PACKAGE -DDEBUG=0 -I./eaf/ -I./mo-tools/ -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c Rnondominated.c -o Rnondominated.o
clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o eaf.so eaf/avl.o eaf/eaf3d.o eaf/eaf.o eaf/io.o mo-tools/hv_contrib.o mo-tools/hv.o mo-tools/pareto.o mo-tools/whv.o mo-tools/whv_hype.o init.o Reaf.o Repsilon.o Rhv.o Rnondominated.o -L/opt/homebrew/Cellar/gsl/2.7.1/lib -lgsl -lgslcblas -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
make -C eaf all march=none CC="clang -arch arm64" CFLAGS="-I/opt/homebrew/include " OPT_CFLAGS="" WARN_CFLAGS="" DEBUG=0 EXE=
---> Removing /Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/ Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/eaf/old/eaf.Rcheck/00_pkg_src/eaf/src/eaf//eaf <---
rm: /Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/: is a directory
make[1]: *** [clean] Error 1
make: *** [all] Error 2
ERROR: compilation failed for package ‘eaf’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/eaf/old/eaf.Rcheck/eaf’
Run revdepcheck::revdep_details(, "EFAtools")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/EFAtools/new/EFAtools.Rcheck/00install.out’ for details.
* installing *source* package ‘EFAtools’ ...
** package ‘EFAtools’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c factor_corres.cpp -o factor_corres.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c ml_helper.cpp -o ml_helper.o
...
3 warnings generated.
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c uls_helper.cpp -o uls_helper.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o EFAtools.so RcppExports.o factor_corres.o ml_helper.o paf_iter.o parallel.o uls_helper.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [EFAtools.so] Error 1
ERROR: compilation failed for package ‘EFAtools’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/EFAtools/new/EFAtools.Rcheck/EFAtools’
* installing *source* package ‘EFAtools’ ...
** package ‘EFAtools’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c factor_corres.cpp -o factor_corres.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c ml_helper.cpp -o ml_helper.o
...
3 warnings generated.
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/EFAtools/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c uls_helper.cpp -o uls_helper.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o EFAtools.so RcppExports.o factor_corres.o ml_helper.o paf_iter.o parallel.o uls_helper.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [EFAtools.so] Error 1
ERROR: compilation failed for package ‘EFAtools’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/EFAtools/old/EFAtools.Rcheck/EFAtools’
Run revdepcheck::revdep_details(, "epistack")
for more info
checking package dependencies ... ERROR ``` Package required but not available: ‘SummarizedExperiment’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "fdasrvf")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/fdasrvf/new/fdasrvf.Rcheck/00install.out’ for details.
* installing *source* package ‘fdasrvf’ ...
** package ‘fdasrvf’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c registerDynamicSymbol.cpp -o registerDynamicSymbol.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c wrapper.cpp -o wrapper.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c fdasrsf/DP.cpp -o fdasrsf/DP.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c fdasrsf/dp_grid.cpp -o fdasrsf/dp_grid.o
...
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c fdaqmap/src/myVector.cpp -o fdaqmap/src/myVector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c fdaqmap/src/UnitSquareImage.cpp -o fdaqmap/src/UnitSquareImage.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o fdasrvf.so registerDynamicSymbol.o wrapper.o fdasrsf/DP.o fdasrsf/dp_grid.o fdasrsf/DynamicProgrammingQ2.o fdasrsf/misc_funcs.o fdasrsf/mlogit_warp_grad.o fdasrsf/bayesian.o fdasrsf/pair_align_functions_expomap.o fdaqmap/src/myVector.o fdaqmap/src/UnitSquareImage.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [fdasrvf.so] Error 1
ERROR: compilation failed for package ‘fdasrvf’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/fdasrvf/new/fdasrvf.Rcheck/fdasrvf’
* installing *source* package ‘fdasrvf’ ...
** package ‘fdasrvf’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c registerDynamicSymbol.cpp -o registerDynamicSymbol.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c wrapper.cpp -o wrapper.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c fdasrsf/DP.cpp -o fdasrsf/DP.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c fdasrsf/dp_grid.cpp -o fdasrsf/dp_grid.o
...
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c fdaqmap/src/myVector.cpp -o fdaqmap/src/myVector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I. -Igropt/incl/ -Ifdaqmap/incl/ -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/fdasrvf/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c fdaqmap/src/UnitSquareImage.cpp -o fdaqmap/src/UnitSquareImage.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o fdasrvf.so registerDynamicSymbol.o wrapper.o fdasrsf/DP.o fdasrsf/dp_grid.o fdasrsf/DynamicProgrammingQ2.o fdasrsf/misc_funcs.o fdasrsf/mlogit_warp_grad.o fdasrsf/bayesian.o fdasrsf/pair_align_functions_expomap.o fdaqmap/src/myVector.o fdaqmap/src/UnitSquareImage.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [fdasrvf.so] Error 1
ERROR: compilation failed for package ‘fdasrvf’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/fdasrvf/old/fdasrvf.Rcheck/fdasrvf’
Run revdepcheck::revdep_details(, "flipr")
for more info
installed size is 9.9Mb
sub-directories of 1Mb or more:
doc 9.0Mb
Run revdepcheck::revdep_details(, "fmriqa")
for more info
'LazyData' is specified without a 'data' directory
Run revdepcheck::revdep_details(, "foreSIGHT")
for more info
Namespaces in Imports field not imported from:
‘RColorBrewer’ ‘Rcpp’ ‘doParallel’
All declared Imports should be used.
Run revdepcheck::revdep_details(, "glottospace")
for more info
checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘rnaturalearthdata’
All declared Imports should be used.
checking data for non-ASCII characters ... NOTE
Note: found 1191 marked UTF-8 strings
Run revdepcheck::revdep_details(, "goffda")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/goffda/new/goffda.Rcheck/00install.out’ for details.
* installing *source* package ‘goffda’ ...
** package ‘goffda’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/goffda/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/goffda/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/goffda/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/goffda/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c flm_stat.cpp -o flm_stat.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o goffda.so RcppExports.o flm_stat.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [goffda.so] Error 1
ERROR: compilation failed for package ‘goffda’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/goffda/new/goffda.Rcheck/goffda’
* installing *source* package ‘goffda’ ...
** package ‘goffda’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/goffda/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/goffda/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/goffda/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/goffda/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c flm_stat.cpp -o flm_stat.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o goffda.so RcppExports.o flm_stat.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [goffda.so] Error 1
ERROR: compilation failed for package ‘goffda’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/goffda/old/goffda.Rcheck/goffda’
Run revdepcheck::revdep_details(, "gprofiler2")
for more info
installed size is 5.4Mb
sub-directories of 1Mb or more:
doc 5.3Mb
Run revdepcheck::revdep_details(, "graph3d")
for more info
'LazyData' is specified without a 'data' directory
Run revdepcheck::revdep_details(, "highcharter")
for more info
Note: found 11 marked UTF-8 strings
Run revdepcheck::revdep_details(, "iSEE")
for more info
checking package dependencies ... ERROR ``` Packages required but not available: 'SummarizedExperiment', 'SingleCellExperiment'
Packages suggested but not available: 'scRNAseq', 'TENxPBMCData', 'scater'
The suggested packages are required for a complete check. Checking can be attempted without them by setting the environment variable R_CHECK_FORCE_SUGGESTS to a false value.
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "isotracer")
for more info
checking installed package size ... NOTE
installed size is 7.8Mb
sub-directories of 1Mb or more:
data 1.8Mb
doc 2.3Mb
libs 2.6Mb
checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘rstantools’
All declared Imports should be used.
checking for GNU extensions in Makefiles ... NOTE
GNU make is a SystemRequirements.
Run revdepcheck::revdep_details(, "kableExtra")
for more info
'LazyData' is specified without a 'data' directory
Run revdepcheck::revdep_details(, "mapping")
for more info
Note: found 29618 marked UTF-8 strings
Run revdepcheck::revdep_details(, "memoria")
for more info
Problems with news in ‘NEWS.md’:
No news entries found.
Run revdepcheck::revdep_details(, "multicolor")
for more info
checking examples ... ERROR ``` Running examples in ‘multicolor-Ex.R’ failed The error most likely occurred in:
Name: nix_first_newline
Title: Remove the first instance of a newline from a string
Aliases: nix_first_newline
** Examples
nix_first_newline("onetwo\nthree\nfour") Error in if (is.na(newline_ix)) { : the condition has length > 1 Calls: nix_first_newline Execution halted ```
checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output:
if (is.na(newline_ix)) {
return(s)
}
: the condition has length > 1
Backtrace:
▆[ FAIL 4 | WARN 0 | SKIP 1 | PASS 19 ] Error: Test failures Execution halted ```
checking startup messages can be suppressed ... NOTE ``` Colors cannot be applied in this environment. Please use another application, such as RStudio or a color-enabled terminal. Colors cannot be applied in this environment. Please use another application, such as RStudio or a color-enabled terminal.
It looks like this package (or a package it requires) has a startup message which cannot be suppressed: see ?packageStartupMessage. ```
checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘cowsay’
All declared Imports should be used.
Run revdepcheck::revdep_details(, "netdiffuseR")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/netdiffuseR/new/netdiffuseR.Rcheck/00install.out’ for details.
* installing *source* package ‘netdiffuseR’ ...
** package ‘netdiffuseR’ 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 we are using the GNU C++ compiler... yes
checking whether clang++ -arch arm64 -std=gnu++17 accepts -g... yes
...
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/netdiffuseR/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/netdiffuseR/RcppArmadillo/include' -I/opt/homebrew/include -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fPIC -I/opt/homebrew/include -c stats.cpp -o stats.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/netdiffuseR/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/netdiffuseR/RcppArmadillo/include' -I/opt/homebrew/include -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fPIC -I/opt/homebrew/include -c struct_test.cpp -o struct_test.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o netdiffuseR.so RcppExports.o adjmat.o infection.o netdiffuser_extra.o plot.o rgraph.o stats.o struct_test.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [netdiffuseR.so] Error 1
ERROR: compilation failed for package ‘netdiffuseR’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/netdiffuseR/new/netdiffuseR.Rcheck/netdiffuseR’
* installing *source* package ‘netdiffuseR’ ...
** package ‘netdiffuseR’ 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 we are using the GNU C++ compiler... yes
checking whether clang++ -arch arm64 -std=gnu++17 accepts -g... yes
...
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/netdiffuseR/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/netdiffuseR/RcppArmadillo/include' -I/opt/homebrew/include -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fPIC -I/opt/homebrew/include -c stats.cpp -o stats.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/netdiffuseR/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/netdiffuseR/RcppArmadillo/include' -I/opt/homebrew/include -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fPIC -I/opt/homebrew/include -c struct_test.cpp -o struct_test.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o netdiffuseR.so RcppExports.o adjmat.o infection.o netdiffuser_extra.o plot.o rgraph.o stats.o struct_test.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [netdiffuseR.so] Error 1
ERROR: compilation failed for package ‘netdiffuseR’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/netdiffuseR/old/netdiffuseR.Rcheck/netdiffuseR’
Run revdepcheck::revdep_details(, "netZooR")
for more info
checking package dependencies ... ERROR ``` Packages required but not available: 'yarn', 'GOstats'
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "oppr")
for more info
checking package dependencies ... ERROR ``` Package suggested but not available: ‘gurobi’
The suggested packages are required for a complete check. Checking can be attempted without them by setting the environment variable R_CHECK_FORCE_SUGGESTS to a false value.
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "palmid")
for more info
Namespaces in Imports field not imported from:
‘DT’ ‘dbplyr’ ‘downloadthis’ ‘ggExtra’ ‘htmlwidgets’ ‘methods’
‘rmarkdown’ ‘scales’
All declared Imports should be used.
Run revdepcheck::revdep_details(, "patientProfilesVis")
for more info
checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: 2. │ └─testthat:::quasi_capture(enquo(object), NULL, evaluate_promise) 3. │ ├─testthat (local) .capture(...) 4. │ │ ├─withr::with_output_sink(...) 5. │ │ │ └─base::force(code) 6. │ │ ├─base::withCallingHandlers(...) 7. │ │ └─base::withVisible(code) 8. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 9. └─patientProfilesVis::createSubjectProfileReport(...)
[ FAIL 1 | WARN 2 | SKIP 20 | PASS 365 ] Error: Test failures Execution halted ```
checking installed package size ... NOTE
installed size is 5.5Mb
sub-directories of 1Mb or more:
doc 5.1Mb
Run revdepcheck::revdep_details(, "pipeComp")
for more info
checking package dependencies ... ERROR ``` Packages required but not available: 'SingleCellExperiment', 'SummarizedExperiment', 'scater'
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "PlaneGeometry")
for more info
installed size is 6.9Mb
sub-directories of 1Mb or more:
doc 5.9Mb
Run revdepcheck::revdep_details(, "plotly")
for more info
installed size is 7.0Mb
sub-directories of 1Mb or more:
R 1.0Mb
htmlwidgets 4.0Mb
Run revdepcheck::revdep_details(, "Quartet")
for more info
Specified C++11: please drop specification unless essential
Run revdepcheck::revdep_details(, "RCDT")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/RCDT/new/RCDT.Rcheck/00install.out’ for details.
* installing *source* package ‘RCDT’ ...
** package ‘RCDT’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++14
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/BH/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/BH/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -falign-functions=64 -Wall -g -O2 -c delaunay.cpp -o delaunay.o
delaunay.cpp:6:9: warning: 'NDEBUG' macro redefined [-Wmacro-redefined]
...
^
1 warning generated.
clang++ -arch arm64 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o RCDT.so RcppExports.o delaunay.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [RCDT.so] Error 1
ERROR: compilation failed for package ‘RCDT’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/RCDT/new/RCDT.Rcheck/RCDT’
* installing *source* package ‘RCDT’ ...
** package ‘RCDT’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++14
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/BH/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/BH/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/RCDT/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -falign-functions=64 -Wall -g -O2 -c delaunay.cpp -o delaunay.o
delaunay.cpp:6:9: warning: 'NDEBUG' macro redefined [-Wmacro-redefined]
...
^
1 warning generated.
clang++ -arch arm64 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o RCDT.so RcppExports.o delaunay.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [RCDT.so] Error 1
ERROR: compilation failed for package ‘RCDT’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/RCDT/old/RCDT.Rcheck/RCDT’
Run revdepcheck::revdep_details(, "reinsureR")
for more info
'LazyData' is specified without a 'data' directory
Run revdepcheck::revdep_details(, "revtools")
for more info
'LazyData' is specified without a 'data' directory
Run revdepcheck::revdep_details(, "ridgetorus")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/ridgetorus/new/ridgetorus.Rcheck/00install.out’ for details.
* installing *source* package ‘ridgetorus’ ...
** package ‘ridgetorus’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c grad-hess.cpp -o grad-hess.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c implicit-eq.cpp -o implicit-eq.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o ridgetorus.so RcppExports.o grad-hess.o implicit-eq.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [ridgetorus.so] Error 1
ERROR: compilation failed for package ‘ridgetorus’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/ridgetorus/new/ridgetorus.Rcheck/ridgetorus’
* installing *source* package ‘ridgetorus’ ...
** package ‘ridgetorus’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c grad-hess.cpp -o grad-hess.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/ridgetorus/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c implicit-eq.cpp -o implicit-eq.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o ridgetorus.so RcppExports.o grad-hess.o implicit-eq.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [ridgetorus.so] Error 1
ERROR: compilation failed for package ‘ridgetorus’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/ridgetorus/old/ridgetorus.Rcheck/ridgetorus’
Run revdepcheck::revdep_details(, "riskParityPortfolio")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/riskParityPortfolio/new/riskParityPortfolio.Rcheck/00install.out’ for details.
* installing *source* package ‘riskParityPortfolio’ ...
** package ‘riskParityPortfolio’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/riskParityPortfolio/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/riskParityPortfolio/RcppEigen/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
In file included from RcppExports.cpp:4:
In file included from /Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/riskParityPortfolio/RcppEigen/include/RcppEigen.h:25:
In file included from /Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/riskParityPortfolio/RcppEigen/include/RcppEigenForward.h:30:
...
^
28 warnings generated.
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o riskParityPortfolio.so RcppExports.o cyclical_coordinate_descent.o newton_nesterov.o objfunctions.o risk_parity_with_constraints.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [riskParityPortfolio.so] Error 1
ERROR: compilation failed for package ‘riskParityPortfolio’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/riskParityPortfolio/new/riskParityPortfolio.Rcheck/riskParityPortfolio’
* installing *source* package ‘riskParityPortfolio’ ...
** package ‘riskParityPortfolio’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/riskParityPortfolio/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/riskParityPortfolio/RcppEigen/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
In file included from RcppExports.cpp:4:
In file included from /Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/riskParityPortfolio/RcppEigen/include/RcppEigen.h:25:
In file included from /Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/riskParityPortfolio/RcppEigen/include/RcppEigenForward.h:30:
...
^
28 warnings generated.
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o riskParityPortfolio.so RcppExports.o cyclical_coordinate_descent.o newton_nesterov.o objfunctions.o risk_parity_with_constraints.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [riskParityPortfolio.so] Error 1
ERROR: compilation failed for package ‘riskParityPortfolio’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/riskParityPortfolio/old/riskParityPortfolio.Rcheck/riskParityPortfolio’
Run revdepcheck::revdep_details(, "rotasym")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/rotasym/new/rotasym.Rcheck/00install.out’ for details.
* installing *source* package ‘rotasym’ ...
** package ‘rotasym’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/rotasym/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/rotasym/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/rotasym/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/rotasym/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c vMF.cpp -o vMF.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o rotasym.so RcppExports.o vMF.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [rotasym.so] Error 1
ERROR: compilation failed for package ‘rotasym’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/rotasym/new/rotasym.Rcheck/rotasym’
* installing *source* package ‘rotasym’ ...
** package ‘rotasym’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/rotasym/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/rotasym/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/rotasym/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/rotasym/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c vMF.cpp -o vMF.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o rotasym.so RcppExports.o vMF.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [rotasym.so] Error 1
ERROR: compilation failed for package ‘rotasym’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/rotasym/old/rotasym.Rcheck/rotasym’
Run revdepcheck::revdep_details(, "scDblFinder")
for more info
checking package dependencies ... ERROR ``` Packages required but not available: 'SingleCellExperiment', 'SummarizedExperiment', 'scater'
Package suggested but not available: ‘scRNAseq’
The suggested packages are required for a complete check. Checking can be attempted without them by setting the environment variable R_CHECK_FORCE_SUGGESTS to a false value.
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "scUtils")
for more info
'LazyData' is specified without a 'data' directory
Run revdepcheck::revdep_details(, "spant")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/spant/new/spant.Rcheck/00install.out’ for details.
* installing *source* package ‘spant’ ...
** package ‘spant’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
sh: /opt/gfortran/bin/gfortran: No such file or directory
using SDK: ‘MacOSX13.3.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c init.c -o init.o
/opt/gfortran/bin/gfortran -arch arm64 -fPIC -Wall -g -O2 -c lsei.f -o lsei.o
make: /opt/gfortran/bin/gfortran: No such file or directory
make: *** [lsei.o] Error 1
ERROR: compilation failed for package ‘spant’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/spant/new/spant.Rcheck/spant’
* installing *source* package ‘spant’ ...
** package ‘spant’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
sh: /opt/gfortran/bin/gfortran: No such file or directory
using SDK: ‘MacOSX13.3.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c init.c -o init.o
/opt/gfortran/bin/gfortran -arch arm64 -fPIC -Wall -g -O2 -c lsei.f -o lsei.o
make: /opt/gfortran/bin/gfortran: No such file or directory
make: *** [lsei.o] Error 1
ERROR: compilation failed for package ‘spant’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/spant/old/spant.Rcheck/spant’
Run revdepcheck::revdep_details(, "spatialLIBD")
for more info
checking package dependencies ... ERROR ``` Packages required but not available: 'SpatialExperiment', 'scater', 'SummarizedExperiment', 'SingleCellExperiment'
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
Run revdepcheck::revdep_details(, "spDates")
for more info
checking installed package size ... NOTE
installed size is 5.9Mb
sub-directories of 1Mb or more:
data 4.3Mb
help 1.5Mb
checking data for non-ASCII characters ... NOTE
Note: found 34 marked UTF-8 strings
Run revdepcheck::revdep_details(, "sphunif")
for more info
Installation failed.
See ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/sphunif/new/sphunif.Rcheck/00install.out’ for details.
* installing *source* package ‘sphunif’ ...
** package ‘sphunif’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c A_theta_x.cpp -o A_theta_x.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c Psi.cpp -o Psi.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
...
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c sph_distr.cpp -o sph_distr.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c sph_stat.cpp -o sph_stat.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o sphunif.so A_theta_x.o Psi.o RcppExports.o auxiliary.o cir_stat.o cir_stat_distr.o distr.o quad.o sph_distr.o sph_stat.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [sphunif.so] Error 1
ERROR: compilation failed for package ‘sphunif’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/sphunif/new/sphunif.Rcheck/sphunif’
* installing *source* package ‘sphunif’ ...
** package ‘sphunif’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX13.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c A_theta_x.cpp -o A_theta_x.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c Psi.cpp -o Psi.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c RcppExports.cpp -o RcppExports.o
...
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c sph_distr.cpp -o sph_distr.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/include" -DNDEBUG -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/Rcpp/include' -I'/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/library.noindex/sphunif/RcppArmadillo/include' -I/opt/homebrew/include -fPIC -I/opt/homebrew/include -c sph_stat.cpp -o sph_stat.o
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -L/opt/homebrew/lib -o sphunif.so A_theta_x.o Psi.o RcppExports.o auxiliary.o cir_stat.o cir_stat_distr.o distr.o quad.o sph_distr.o sph_stat.o -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/Versions/4.3-arm64 -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0'
ld: warning: directory not found for option '-L/opt/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [sphunif.so] Error 1
ERROR: compilation failed for package ‘sphunif’
* removing ‘/Users/simon/Library/CloudStorage/GoogleDrive-garnier@njit.edu/My Drive/Work/research/software/R/viridisLite/revdep/checks.noindex/sphunif/old/sphunif.Rcheck/sphunif’
Run revdepcheck::revdep_details(, "Ternary")
for more info
installed size is 6.1Mb
sub-directories of 1Mb or more:
doc 5.1Mb
Run revdepcheck::revdep_details(, "tmaptools")
for more info
'LazyData' is specified without a 'data' directory
Run revdepcheck::revdep_details(, "viridis")
for more info
Namespace in Imports field not imported from: ‘stats’
All declared Imports should be used.
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