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This page was generated on 2023-03-16 11:02:09 -0400 (Thu, 16 Mar 2023).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson2macOS 12.6.1 Montereyarm64R Under development (unstable) (2023-01-10 r83596) -- "Unsuffered Consequences" 4115
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for RNAdecay on kjohnson2


To the developers/maintainers of the RNAdecay package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1709/2189HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RNAdecay 1.19.0  (landing page)
Reed Sorenson
Snapshot Date: 2023-03-13 13:00:01 -0400 (Mon, 13 Mar 2023)
git_url: https://git.bioconductor.org/packages/RNAdecay
git_branch: master
git_last_commit: d17fd6f
git_last_commit_date: 2022-11-01 11:17:45 -0400 (Tue, 01 Nov 2022)
kjohnson2macOS 12.6.1 Monterey / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: RNAdecay
Version: 1.19.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RNAdecay.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RNAdecay_1.19.0.tar.gz
StartedAt: 2023-03-14 10:50:29 -0400 (Tue, 14 Mar 2023)
EndedAt: 2023-03-14 10:50:42 -0400 (Tue, 14 Mar 2023)
EllapsedTime: 13.1 seconds
RetCode: 0
Status:   OK  
CheckDir: RNAdecay.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RNAdecay.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RNAdecay_1.19.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/RNAdecay.Rcheck’
* using R Under development (unstable) (2023-01-10 r83596)
* using platform: aarch64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 13.0.0 (clang-1300.0.29.3)
    GNU Fortran (GCC) 12.0.1 20220312 (experimental)
* running under: macOS Monterey 12.6.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RNAdecay/DESCRIPTION’ ... OK
* this is package ‘RNAdecay’ version ‘1.19.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘RNAdecay’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 97.0Mb
  sub-directories of 1Mb or more:
    data   2.7Mb
    libs  94.1Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
decay_plot: no visible binding for global variable ‘text’
decay_plot: no visible binding for global variable ‘x’
decay_plot: no visible binding for global variable ‘y’
decay_plot: no visible binding for global variable ‘treatment’
decay_plot: no visible binding for global variable ‘t.decay’
decay_plot: no visible binding for global variable ‘value’
hl_plot: no visible binding for global variable ‘x’
hl_plot: no visible binding for global variable ‘y’
Undefined global functions or variables:
  t.decay text treatment value x y
Consider adding
  importFrom("graphics", "text")
to your NAMESPACE file.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/RNAdecay.Rcheck/00check.log’
for details.



Installation output

RNAdecay.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL RNAdecay
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘RNAdecay’ ...
** using staged installation
** libs
/Library/Frameworks/R.framework/Resources/bin/Rscript --vanilla -e "TMB::compile('general_dExp_1sse.cpp',safebounds=FALSE,safeunload=FALSE)"
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include"   -DTMB_EIGEN_DISABLE_WARNINGS   -DTMB_LIB_INIT=R_init_general_dExp_1sse  -DCPPAD_FRAMEWORK  -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c general_dExp_1sse.cpp -o general_dExp_1sse.o
In file included from general_dExp_1sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:34:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/ode_gear.hpp:489:6: warning: variable 'sign' set but not used [-Wunused-but-set-variable]
        int sign;
            ^
In file included from general_dExp_1sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:39:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/romberg_mul.hpp:277:10: warning: variable 'pow2' set but not used [-Wunused-but-set-variable]
                size_t pow2 = 1;
                       ^
2 warnings 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/Resources/lib -L/opt/R/arm64/lib -o general_dExp_1sse.so general_dExp_1sse.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
[1] 0
/Library/Frameworks/R.framework/Resources/bin/Rscript --vanilla -e "TMB::compile('general_Exp_1sse.cpp',safebounds=FALSE,safeunload=FALSE)"
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include"   -DTMB_EIGEN_DISABLE_WARNINGS   -DTMB_LIB_INIT=R_init_general_Exp_1sse  -DCPPAD_FRAMEWORK  -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c general_Exp_1sse.cpp -o general_Exp_1sse.o
In file included from general_Exp_1sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:34:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/ode_gear.hpp:489:6: warning: variable 'sign' set but not used [-Wunused-but-set-variable]
        int sign;
            ^
In file included from general_Exp_1sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:39:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/romberg_mul.hpp:277:10: warning: variable 'pow2' set but not used [-Wunused-but-set-variable]
                size_t pow2 = 1;
                       ^
2 warnings 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/Resources/lib -L/opt/R/arm64/lib -o general_Exp_1sse.so general_Exp_1sse.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
[1] 0
/Library/Frameworks/R.framework/Resources/bin/Rscript --vanilla -e "TMB::compile('general_dExp_2sse.cpp',safebounds=FALSE,safeunload=FALSE)"
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include"   -DTMB_EIGEN_DISABLE_WARNINGS   -DTMB_LIB_INIT=R_init_general_dExp_2sse  -DCPPAD_FRAMEWORK  -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c general_dExp_2sse.cpp -o general_dExp_2sse.o
In file included from general_dExp_2sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:34:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/ode_gear.hpp:489:6: warning: variable 'sign' set but not used [-Wunused-but-set-variable]
        int sign;
            ^
In file included from general_dExp_2sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:39:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/romberg_mul.hpp:277:10: warning: variable 'pow2' set but not used [-Wunused-but-set-variable]
                size_t pow2 = 1;
                       ^
2 warnings 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/Resources/lib -L/opt/R/arm64/lib -o general_dExp_2sse.so general_dExp_2sse.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
[1] 0
/Library/Frameworks/R.framework/Resources/bin/Rscript --vanilla -e "TMB::compile('general_Exp_2sse.cpp',safebounds=FALSE,safeunload=FALSE)"
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include"   -DTMB_EIGEN_DISABLE_WARNINGS   -DTMB_LIB_INIT=R_init_general_Exp_2sse  -DCPPAD_FRAMEWORK  -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c general_Exp_2sse.cpp -o general_Exp_2sse.o
In file included from general_Exp_2sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:34:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/ode_gear.hpp:489:6: warning: variable 'sign' set but not used [-Wunused-but-set-variable]
        int sign;
            ^
In file included from general_Exp_2sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:39:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/romberg_mul.hpp:277:10: warning: variable 'pow2' set but not used [-Wunused-but-set-variable]
                size_t pow2 = 1;
                       ^
2 warnings 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/Resources/lib -L/opt/R/arm64/lib -o general_Exp_2sse.so general_Exp_2sse.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
[1] 0
/Library/Frameworks/R.framework/Resources/bin/Rscript --vanilla -e "TMB::compile('general_dExp_3sse.cpp',safebounds=FALSE,safeunload=FALSE)"
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include"   -DTMB_EIGEN_DISABLE_WARNINGS   -DTMB_LIB_INIT=R_init_general_dExp_3sse  -DCPPAD_FRAMEWORK  -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c general_dExp_3sse.cpp -o general_dExp_3sse.o
In file included from general_dExp_3sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:34:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/ode_gear.hpp:489:6: warning: variable 'sign' set but not used [-Wunused-but-set-variable]
        int sign;
            ^
In file included from general_dExp_3sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:39:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/romberg_mul.hpp:277:10: warning: variable 'pow2' set but not used [-Wunused-but-set-variable]
                size_t pow2 = 1;
                       ^
2 warnings 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/Resources/lib -L/opt/R/arm64/lib -o general_dExp_3sse.so general_dExp_3sse.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
[1] 0
/Library/Frameworks/R.framework/Resources/bin/Rscript --vanilla -e "TMB::compile('general_Exp_3sse.cpp',safebounds=FALSE,safeunload=FALSE)"
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include"   -DTMB_EIGEN_DISABLE_WARNINGS   -DTMB_LIB_INIT=R_init_general_Exp_3sse  -DCPPAD_FRAMEWORK  -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c general_Exp_3sse.cpp -o general_Exp_3sse.o
In file included from general_Exp_3sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:34:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/ode_gear.hpp:489:6: warning: variable 'sign' set but not used [-Wunused-but-set-variable]
        int sign;
            ^
In file included from general_Exp_3sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:39:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/romberg_mul.hpp:277:10: warning: variable 'pow2' set but not used [-Wunused-but-set-variable]
                size_t pow2 = 1;
                       ^
2 warnings 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/Resources/lib -L/opt/R/arm64/lib -o general_Exp_3sse.so general_Exp_3sse.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
[1] 0
/Library/Frameworks/R.framework/Resources/bin/Rscript --vanilla -e "TMB::compile('general_dExp_4sse.cpp',safebounds=FALSE,safeunload=FALSE)"
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include"   -DTMB_EIGEN_DISABLE_WARNINGS   -DTMB_LIB_INIT=R_init_general_dExp_4sse  -DCPPAD_FRAMEWORK  -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c general_dExp_4sse.cpp -o general_dExp_4sse.o
In file included from general_dExp_4sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:34:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/ode_gear.hpp:489:6: warning: variable 'sign' set but not used [-Wunused-but-set-variable]
        int sign;
            ^
In file included from general_dExp_4sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:39:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/romberg_mul.hpp:277:10: warning: variable 'pow2' set but not used [-Wunused-but-set-variable]
                size_t pow2 = 1;
                       ^
2 warnings 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/Resources/lib -L/opt/R/arm64/lib -o general_dExp_4sse.so general_dExp_4sse.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
[1] 0
/Library/Frameworks/R.framework/Resources/bin/Rscript --vanilla -e "TMB::compile('general_Exp_4sse.cpp',safebounds=FALSE,safeunload=FALSE)"
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include" -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RcppEigen/include"   -DTMB_EIGEN_DISABLE_WARNINGS   -DTMB_LIB_INIT=R_init_general_Exp_4sse  -DCPPAD_FRAMEWORK  -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c general_Exp_4sse.cpp -o general_Exp_4sse.o
In file included from general_Exp_4sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:34:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/ode_gear.hpp:489:6: warning: variable 'sign' set but not used [-Wunused-but-set-variable]
        int sign;
            ^
In file included from general_Exp_4sse.cpp:2:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/TMB.hpp:107:
In file included from /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/cppad.hpp:39:
/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/TMB/include/cppad/romberg_mul.hpp:277:10: warning: variable 'pow2' set but not used [-Wunused-but-set-variable]
                size_t pow2 = 1;
                       ^
2 warnings 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/Resources/lib -L/opt/R/arm64/lib -o general_Exp_4sse.so general_Exp_4sse.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
[1] 0
installing to /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/00LOCK-RNAdecay/00new/RNAdecay/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (RNAdecay)

Tests output


Example timings

RNAdecay.Rcheck/RNAdecay-Ex.timings

nameusersystemelapsed
a_high000
aic0.0010.0010.000
cols0.0010.0000.001
comb_cv0.0010.0000.001
const_decay000
constraint_fun_list_maker0.0010.0010.001
decay_plot0.3790.0140.394
fit_var000
group_map0.0150.0020.018
groupings0.0010.0000.001
hl_plot0.3720.0050.377
log_lik000
mod_optimization0.5990.0220.624
n_par000
plain_theme0.0220.0020.023
sse_null_decaying_decay000