Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-23 11:46 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4372 |
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 |
Package 2076/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
survcomp 1.57.0 (landing page) Benjamin Haibe-Kains
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | WARNINGS | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the survcomp package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/survcomp.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: survcomp |
Version: 1.57.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:survcomp.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings survcomp_1.57.0.tar.gz |
StartedAt: 2024-12-22 21:44:03 -0500 (Sun, 22 Dec 2024) |
EndedAt: 2024-12-22 21:44:29 -0500 (Sun, 22 Dec 2024) |
EllapsedTime: 26.3 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: survcomp.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:survcomp.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings survcomp_1.57.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/survcomp.Rcheck’ * using R Under development (unstable) (2024-11-20 r87352) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘survcomp/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘survcomp’ version ‘1.57.0’ * 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 ‘survcomp’ can be installed ... WARNING Found the following significant warnings: foo_mrmr_ensemble_surv.cpp:821:16: warning: variable 'res_old' is uninitialized when used here [-Wuninitialized] ./tree.h:505:18: warning: 'allocate' is deprecated [-Wdeprecated-declarations] ./tree.h:506:16: warning: 'allocate' is deprecated [-Wdeprecated-declarations] ./tree.h:1122:26: warning: 'allocate' is deprecated [-Wdeprecated-declarations] ./tree.h:998:26: warning: 'allocate' is deprecated [-Wdeprecated-declarations] ./tree.h:886:26: warning: 'allocate' is deprecated [-Wdeprecated-declarations] See ‘/Users/biocbuild/bbs-3.21-bioc/meat/survcomp.Rcheck/00install.out’ for details. * used C compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ * used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ * used SDK: ‘MacOSX11.3.sdk’ * checking installed package size ... OK * 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 code 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 whether startup messages can be suppressed ... 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 ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: metaplot.surv.Rd: meta.colors Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * 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 data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 WARNING, 2 NOTEs See ‘/Users/biocbuild/bbs-3.21-bioc/meat/survcomp.Rcheck/00check.log’ for details.
survcomp.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL survcomp ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘survcomp’ ... ** using staged installation ** libs using C compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ using SDK: ‘MacOSX11.3.sdk’ clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c concordance.index.c -o concordance.index.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c foo_mrmr_ensemble_surv.cpp -o foo_mrmr_ensemble_surv.o foo_mrmr_ensemble_surv.cpp:191:17: warning: unused variable 'msurv_x' [-Wunused-variable] int *namat_x, *msurv_x, *ustrat_x, *cl2_x, *se_x, *strat_x; ^ foo_mrmr_ensemble_surv.cpp:191:27: warning: unused variable 'ustrat_x' [-Wunused-variable] int *namat_x, *msurv_x, *ustrat_x, *cl2_x, *se_x, *strat_x; ^ foo_mrmr_ensemble_surv.cpp:351:7: warning: unused variable 'cnt_back' [-Wunused-variable] int cnt_back=cnt2; ^ foo_mrmr_ensemble_surv.cpp:286:7: warning: unused variable 'nsub' [-Wunused-variable] int nsub, *prev_sel,nsamples_boot=nsamples,*to_remove; ^ foo_mrmr_ensemble_surv.cpp:387:10: warning: unused variable 'mim' [-Wunused-variable] double *mim, *boot_val, *mat_info; ^ foo_mrmr_ensemble_surv.cpp:437:15: warning: variable 'jmax' set but not used [-Wunused-but-set-variable] unsigned int jmax; ^ foo_mrmr_ensemble_surv.cpp:439:9: warning: unused variable 'max_val' [-Wunused-variable] double max_val=-1000; ^ foo_mrmr_ensemble_surv.cpp:467:7: warning: unused variable 'found' [-Wunused-variable] bool found=false; ^ foo_mrmr_ensemble_surv.cpp:578:24: warning: unused variable 'nsamples_boot' [-Wunused-variable] int *nsub, *prev_sel,nsamples_boot=nsamples, tmp_val_max_ind, *prev_sel_tmp,*vec_sol_local,ndelete; ^ foo_mrmr_ensemble_surv.cpp:578:48: warning: unused variable 'tmp_val_max_ind' [-Wunused-variable] int *nsub, *prev_sel,nsamples_boot=nsamples, tmp_val_max_ind, *prev_sel_tmp,*vec_sol_local,ndelete; ^ foo_mrmr_ensemble_surv.cpp:578:66: warning: unused variable 'prev_sel_tmp' [-Wunused-variable] int *nsub, *prev_sel,nsamples_boot=nsamples, tmp_val_max_ind, *prev_sel_tmp,*vec_sol_local,ndelete; ^ foo_mrmr_ensemble_surv.cpp:579:21: warning: unused variable 'vec_sort' [-Wunused-variable] double *vec_mean, *vec_sort, *vec_sd, *vec_local_max_mean, *vec_local_max_sd,tmp_val_max, *mrmr_vec_sort,*vec_sol_local_mrmr; ^ foo_mrmr_ensemble_surv.cpp:579:63: warning: variable 'vec_local_max_sd' set but not used [-Wunused-but-set-variable] double *vec_mean, *vec_sort, *vec_sd, *vec_local_max_mean, *vec_local_max_sd,tmp_val_max, *mrmr_vec_sort,*vec_sol_local_mrmr; ^ foo_mrmr_ensemble_surv.cpp:801:13: warning: unused variable 'cnt2' [-Wunused-variable] int cnt=1,cnt2=0; ^ foo_mrmr_ensemble_surv.cpp:804:7: warning: unused variable 'rootdepth' [-Wunused-variable] int rootdepth=res_tree.depth(it_final); ^ foo_mrmr_ensemble_surv.cpp:817:7: warning: unused variable 'ind' [-Wunused-variable] int ind=0; ^ foo_mrmr_ensemble_surv.cpp:733:30: warning: unused variable 'res_all' [-Wunused-variable] int *predn, *rep_boot,*res,*res_all,*res_all2, *namat; ^ foo_mrmr_ensemble_surv.cpp:733:39: warning: unused variable 'res_all2' [-Wunused-variable] int *predn, *rep_boot,*res,*res_all,*res_all2, *namat; ^ foo_mrmr_ensemble_surv.cpp:734:6: warning: unused variable 'vec_tmp' [-Wunused-variable] int vec_tmp; ^ foo_mrmr_ensemble_surv.cpp:821:16: warning: variable 'res_old' is uninitialized when used here [-Wuninitialized] res_all[k]=res_old[k]; ^~~~~~~ foo_mrmr_ensemble_surv.cpp:816:25: note: initialize the variable 'res_old' to silence this warning int *res_all, *res_old; ^ = nullptr In file included from foo_mrmr_ensemble_surv.cpp:1: In file included from ./foo_mrmr_ensemble_surv.h:10: ./tree.h:505:18: warning: 'allocate' is deprecated [-Wdeprecated-declarations] head = alloc_.allocate(1,0); // MSVC does not have default second argument ^ ./tree.h:530:2: note: in instantiation of member function 'tree<int>::head_initialise_' requested here head_initialise_(); ^ foo_mrmr_ensemble_surv.cpp:611:24: note: in instantiation of member function 'tree<int>::tree' requested here tree<int> res_tmp_new=res ; ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/memory:1668:61: note: 'allocate' has been explicitly marked deprecated here _LIBCPP_NODISCARD_AFTER_CXX17 _LIBCPP_INLINE_VISIBILITY _LIBCPP_DEPRECATED_IN_CXX17 ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1058:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1035:48: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) ^ In file included from foo_mrmr_ensemble_surv.cpp:1: In file included from ./foo_mrmr_ensemble_surv.h:10: ./tree.h:506:16: warning: 'allocate' is deprecated [-Wdeprecated-declarations] feet = alloc_.allocate(1,0); ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/memory:1668:61: note: 'allocate' has been explicitly marked deprecated here _LIBCPP_NODISCARD_AFTER_CXX17 _LIBCPP_INLINE_VISIBILITY _LIBCPP_DEPRECATED_IN_CXX17 ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1058:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1035:48: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) ^ In file included from foo_mrmr_ensemble_surv.cpp:1: In file included from ./foo_mrmr_ensemble_surv.h:10: ./tree.h:1122:26: warning: 'allocate' is deprecated [-Wdeprecated-declarations] tree_node* tmp = alloc_.allocate(1,0); ^ ./tree.h:547:6: note: in instantiation of function template specialization 'tree<int>::replace<tree<int>::pre_order_iterator>' requested here to=replace(to, it); ^ ./tree.h:531:2: note: in instantiation of member function 'tree<int>::copy_' requested here copy_(other); ^ foo_mrmr_ensemble_surv.cpp:611:24: note: in instantiation of member function 'tree<int>::tree' requested here tree<int> res_tmp_new=res ; ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/memory:1668:61: note: 'allocate' has been explicitly marked deprecated here _LIBCPP_NODISCARD_AFTER_CXX17 _LIBCPP_INLINE_VISIBILITY _LIBCPP_DEPRECATED_IN_CXX17 ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1058:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1035:48: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) ^ In file included from foo_mrmr_ensemble_surv.cpp:1: In file included from ./foo_mrmr_ensemble_surv.h:10: ./tree.h:505:18: warning: 'allocate' is deprecated [-Wdeprecated-declarations] head = alloc_.allocate(1,0); // MSVC does not have default second argument ^ ./tree.h:476:2: note: in instantiation of member function 'tree<double>::head_initialise_' requested here head_initialise_(); ^ foo_mrmr_ensemble_surv.cpp:620:15: note: in instantiation of member function 'tree<double>::tree' requested here tree<double> res_mrmr; ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/memory:1668:61: note: 'allocate' has been explicitly marked deprecated here _LIBCPP_NODISCARD_AFTER_CXX17 _LIBCPP_INLINE_VISIBILITY _LIBCPP_DEPRECATED_IN_CXX17 ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1058:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1035:48: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) ^ In file included from foo_mrmr_ensemble_surv.cpp:1: In file included from ./foo_mrmr_ensemble_surv.h:10: ./tree.h:506:16: warning: 'allocate' is deprecated [-Wdeprecated-declarations] feet = alloc_.allocate(1,0); ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/memory:1668:61: note: 'allocate' has been explicitly marked deprecated here _LIBCPP_NODISCARD_AFTER_CXX17 _LIBCPP_INLINE_VISIBILITY _LIBCPP_DEPRECATED_IN_CXX17 ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1058:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1035:48: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) ^ In file included from foo_mrmr_ensemble_surv.cpp:1: In file included from ./foo_mrmr_ensemble_surv.h:10: ./tree.h:998:26: warning: 'allocate' is deprecated [-Wdeprecated-declarations] tree_node* tmp = alloc_.allocate(1,0); ^ foo_mrmr_ensemble_surv.cpp:625:11: note: in instantiation of function template specialization 'tree<double>::insert<tree<double>::pre_order_iterator>' requested here res_mrmr.insert(top_mrmr, predn); ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/memory:1668:61: note: 'allocate' has been explicitly marked deprecated here _LIBCPP_NODISCARD_AFTER_CXX17 _LIBCPP_INLINE_VISIBILITY _LIBCPP_DEPRECATED_IN_CXX17 ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1058:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1035:48: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) ^ In file included from foo_mrmr_ensemble_surv.cpp:1: In file included from ./foo_mrmr_ensemble_surv.h:10: ./tree.h:886:26: warning: 'allocate' is deprecated [-Wdeprecated-declarations] tree_node* tmp = alloc_.allocate(1,0); ^ foo_mrmr_ensemble_surv.cpp:690:17: note: in instantiation of function template specialization 'tree<int>::append_child<tree<int>::pre_order_iterator>' requested here res_tmp_new.append_child(it_local,vec_sol_local[k]); ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/memory:1668:61: note: 'allocate' has been explicitly marked deprecated here _LIBCPP_NODISCARD_AFTER_CXX17 _LIBCPP_INLINE_VISIBILITY _LIBCPP_DEPRECATED_IN_CXX17 ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1058:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1035:48: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) ^ In file included from foo_mrmr_ensemble_surv.cpp:1: In file included from ./foo_mrmr_ensemble_surv.h:10: ./tree.h:886:26: warning: 'allocate' is deprecated [-Wdeprecated-declarations] tree_node* tmp = alloc_.allocate(1,0); ^ foo_mrmr_ensemble_surv.cpp:691:14: note: in instantiation of function template specialization 'tree<double>::append_child<tree<double>::pre_order_iterator>' requested here res_mrmr.append_child(it_mrmr_local,vec_sol_local_mrmr[k]); ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/memory:1668:61: note: 'allocate' has been explicitly marked deprecated here _LIBCPP_NODISCARD_AFTER_CXX17 _LIBCPP_INLINE_VISIBILITY _LIBCPP_DEPRECATED_IN_CXX17 ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1058:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1035:48: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) ^ In file included from foo_mrmr_ensemble_surv.cpp:1: In file included from ./foo_mrmr_ensemble_surv.h:10: ./tree.h:998:26: warning: 'allocate' is deprecated [-Wdeprecated-declarations] tree_node* tmp = alloc_.allocate(1,0); ^ foo_mrmr_ensemble_surv.cpp:788:16: note: in instantiation of function template specialization 'tree<int>::insert<tree<int>::pre_order_iterator>' requested here one=res_tree.insert(top, predn[i]); ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/memory:1668:61: note: 'allocate' has been explicitly marked deprecated here _LIBCPP_NODISCARD_AFTER_CXX17 _LIBCPP_INLINE_VISIBILITY _LIBCPP_DEPRECATED_IN_CXX17 ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1058:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED ^ /Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/__config:1035:48: note: expanded from macro '_LIBCPP_DEPRECATED' # define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) ^ 29 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c foo_mrmr_surv.cpp -o foo_mrmr_surv.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c survcomp_init.cpp -o survcomp_init.o clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o survcomp.so concordance.index.o foo_mrmr_ensemble_surv.o foo_mrmr_surv.o survcomp_init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/00LOCK-survcomp/00new/survcomp/libs ** R ** data ** 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 (survcomp)
survcomp.Rcheck/survcomp-Ex.timings
name | user | system | elapsed | |
D.index | 0.010 | 0.002 | 0.012 | |
balanced.hazard.ratio | 0.003 | 0.001 | 0.004 | |
bhr.comp | 0.004 | 0.000 | 0.004 | |
breastCancerData | 0.195 | 0.006 | 0.201 | |
censor.time | 0.000 | 0.001 | 0.001 | |
cindex.comp | 0.001 | 0.000 | 0.001 | |
cindex.comp.meta | 0.002 | 0.000 | 0.002 | |
combine.est | 0 | 0 | 0 | |
combine.test | 0.000 | 0.000 | 0.001 | |
concordance.index | 0.001 | 0.000 | 0.001 | |
cvpl | 0.033 | 0.000 | 0.034 | |
dindex.comp | 0.003 | 0.000 | 0.003 | |
dindex.comp.meta | 0.005 | 0.000 | 0.005 | |
fisherz | 0 | 0 | 0 | |
forestplot.surv | 0.020 | 0.001 | 0.021 | |
getsurv2 | 0.002 | 0.000 | 0.003 | |
hazard.ratio | 0.003 | 0.001 | 0.003 | |
hr.comp | 0.002 | 0.000 | 0.003 | |
hr.comp.meta | 0.006 | 0.000 | 0.005 | |
hr.comp2 | 0.002 | 0.000 | 0.002 | |
iauc.comp | 0.058 | 0.004 | 0.062 | |
ibsc.comp | 0.062 | 0.003 | 0.066 | |
km.coxph.plot | 0.018 | 0.001 | 0.019 | |
logpl | 0.003 | 0.000 | 0.004 | |
mainz7g | 0.072 | 0.003 | 0.074 | |
metaplot.surv | 0.001 | 0.000 | 0.001 | |
mrmr.cindex | 0.001 | 0.001 | 0.001 | |
nki7g | 0.068 | 0.002 | 0.069 | |
no.at.risk | 0.003 | 0.001 | 0.004 | |
sbrier.score2proba | 0.048 | 0.000 | 0.048 | |
score2proba | 0.005 | 0.000 | 0.005 | |
td.sens.spec | 0.001 | 0.000 | 0.001 | |
tdrocc | 0.032 | 0.008 | 0.040 | |
test.hetero.est | 0.001 | 0.000 | 0.000 | |
test.hetero.test | 0 | 0 | 0 | |
transbig7g | 0.068 | 0.002 | 0.071 | |
unt7g | 0.068 | 0.002 | 0.070 | |
upp7g | 0.068 | 0.002 | 0.070 | |
vdx7g | 0.069 | 0.002 | 0.070 | |