Benjamin Haibe-Kains
| Snapshot Date: 2025-10-23 14:17 -0400 (Thu, 23 Oct 2025) |
| git_url: https://git.bioconductor.org/packages/survcomp |
| git_branch: devel |
| git_last_commit: f5f1852 |
| git_last_commit_date: 2025-04-15 10:07:43 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-10-24 12:07 -0400 (Fri, 24 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4898 |
| lconway | macOS 12.7.6 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4688 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4634 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4658 |
| 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 2156/2359 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| survcomp 1.59.0 (landing page) Benjamin Haibe-Kains
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.6 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | NA | ||||||||||
|
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: 1.59.0 |
| 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_1.59.0.tar.gz |
| StartedAt: 2025-10-23 22:31:11 -0400 (Thu, 23 Oct 2025) |
| EndedAt: 2025-10-23 22:31:38 -0400 (Thu, 23 Oct 2025) |
| EllapsedTime: 27.3 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: survcomp.Rcheck |
| Warnings: 1 |
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###
### 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_1.59.0.tar.gz
###
##############################################################################
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* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/survcomp.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 16.0.0 (clang-1600.0.26.6)
GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘survcomp/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘survcomp’ version ‘1.59.0’
* 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-3.22-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: ‘MacOSX11.3.1.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-3.22-bioc/meat/survcomp.Rcheck/00check.log’
for details.
survcomp.Rcheck/00install.out
##############################################################################
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###
### 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’ ...
** this is package ‘survcomp’ version ‘1.59.0’
** 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: ‘MacOSX11.3.1.sdk’
clang -arch arm64 -std=gnu2x -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 -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 -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 -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
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 | 0.008 | 0.001 | 0.011 | |
| balanced.hazard.ratio | 0.004 | 0.001 | 0.007 | |
| bhr.comp | 0.004 | 0.000 | 0.011 | |
| breastCancerData | 0.183 | 0.015 | 0.202 | |
| censor.time | 0 | 0 | 0 | |
| cindex.comp | 0.001 | 0.000 | 0.001 | |
| cindex.comp.meta | 0.001 | 0.001 | 0.001 | |
| combine.est | 0.001 | 0.000 | 0.001 | |
| combine.test | 0 | 0 | 0 | |
| concordance.index | 0.001 | 0.001 | 0.002 | |
| cvpl | 0.032 | 0.002 | 0.034 | |
| dindex.comp | 0.008 | 0.003 | 0.012 | |
| dindex.comp.meta | 0.006 | 0.000 | 0.005 | |
| fisherz | 0 | 0 | 0 | |
| forestplot.surv | 0.01 | 0.00 | 0.01 | |
| getsurv2 | 0.002 | 0.001 | 0.002 | |
| hazard.ratio | 0.002 | 0.001 | 0.004 | |
| hr.comp | 0.003 | 0.000 | 0.003 | |
| hr.comp.meta | 0.005 | 0.000 | 0.005 | |
| hr.comp2 | 0.002 | 0.001 | 0.002 | |
| iauc.comp | 0.057 | 0.003 | 0.061 | |
| ibsc.comp | 0.062 | 0.003 | 0.066 | |
| km.coxph.plot | 0.013 | 0.001 | 0.013 | |
| logpl | 0.003 | 0.000 | 0.003 | |
| mainz7g | 0.071 | 0.003 | 0.074 | |
| metaplot.surv | 0.001 | 0.001 | 0.001 | |
| mrmr.cindex | 0.000 | 0.000 | 0.001 | |
| nki7g | 0.067 | 0.003 | 0.071 | |
| no.at.risk | 0.004 | 0.000 | 0.004 | |
| sbrier.score2proba | 0.047 | 0.001 | 0.048 | |
| score2proba | 0.005 | 0.000 | 0.005 | |
| td.sens.spec | 0.001 | 0.000 | 0.001 | |
| tdrocc | 0.028 | 0.006 | 0.034 | |
| test.hetero.est | 0 | 0 | 0 | |
| test.hetero.test | 0.001 | 0.000 | 0.001 | |
| transbig7g | 0.070 | 0.003 | 0.072 | |
| unt7g | 0.071 | 0.003 | 0.073 | |
| upp7g | 0.073 | 0.002 | 0.075 | |
| vdx7g | 0.080 | 0.005 | 0.084 | |