| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:08:49 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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 | ||||
|
To the developers/maintainers of the survcomp package: - Please 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 How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1912/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| survcomp 1.45.1 (landing page) Benjamin Haibe-Kains
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | WARNINGS | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | |||||||||
| Package: survcomp |
| Version: 1.45.1 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:survcomp.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings survcomp_1.45.1.tar.gz |
| StartedAt: 2022-03-17 20:25:38 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 20:26:49 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 70.8 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: survcomp.Rcheck |
| Warnings: 1 |
##############################################################################
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:survcomp.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings survcomp_1.45.1.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/survcomp.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'survcomp/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'survcomp' version '1.45.1'
* 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 whether package 'survcomp' can be installed ... OK
* 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 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 ... WARNING
concordance:
function(object, ...)
concordance.index:
function(x, surv.time, surv.event, cl, weights, comppairs, strat,
alpha, outx, method, alternative, na.rm)
See section 'Generic functions and methods' in the 'Writing R
Extensions' manual.
Found the following apparent S3 methods exported but not registered:
concordance.index
See section 'Registering S3 methods' in the 'Writing R Extensions'
manual.
* 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 ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... NOTE
S3 methods shown with full name in documentation object 'concordance.index':
'concordance.index'
The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* 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 for x64 is not available
File 'D:/biocbuild/bbs-3.15-bioc/R/library/survcomp/libs/x64/survcomp.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
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. The detected symbols are linked into the code but
might come from libraries and not actually be called.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
* 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: 1 WARNING, 2 NOTEs
See
'D:/biocbuild/bbs-3.15-bioc/meat/survcomp.Rcheck/00check.log'
for details.
survcomp.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL survcomp
###
##############################################################################
##############################################################################
* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'survcomp' ...
** using staged installation
** libs
"C:/rtools40/mingw64/bin/"gcc -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition -c concordance.index.c -o concordance.index.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition -c foo_mrmr_ensemble_surv.cpp -o foo_mrmr_ensemble_surv.o
foo_mrmr_ensemble_surv.cpp: In function 'double get_correlation_ensemble(double*, int*, int, int, int)':
foo_mrmr_ensemble_surv.cpp:12:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for( unsigned int i=0; i< size; ++i ) {
~^~~~~~
foo_mrmr_ensemble_surv.cpp:22:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for( unsigned int i=0; i< size; ++i ) {
~^~~~~~
foo_mrmr_ensemble_surv.cpp: In function 'double returnConcordanceIndexC(int*, int*, double*, int*, double*, int*, double*, int*, int*, int*, int, int*)':
foo_mrmr_ensemble_surv.cpp:106:10: warning: variable 'uhs' set but not used [-Wunused-but-set-variable]
double uhs[Ns];
^~~
foo_mrmr_ensemble_surv.cpp:107:10: warning: variable 'rphs' set but not used [-Wunused-but-set-variable]
double rphs[Ns];
^~~~
foo_mrmr_ensemble_surv.cpp: In function 'void build_mim_cIndex_subset(double*, double*, int*, int, int, int*, int, int*, int*, int*, double*, int*, double*, int*, int*, int*, int*)':
foo_mrmr_ensemble_surv.cpp:202:25: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int i=0; i< size_subset; ++i){
~^~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:203:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int j=0; j< (nvar-1); ++j){
~^~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:214:25: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int i=0; i< nvar-1; ++i){
~^~~~~~~~
foo_mrmr_ensemble_surv.cpp:216:28: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int j=i+1; j< nvar-1; ++j){
~^~~~~~~~
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: In function 'void bootstrap_tree(tree<int>&, tree<double>&, double*, int*, int, int, int, int*, int*, int*, double*, int*, double*, int*, int*, int*, int, int*)':
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: In function 'void bootstrap_mrmr(double&, double&, double*, int*, int, int, int, int, int, int, int, int*, int*, int*, int*, double*, int*, double*, int*, int*, int*, int, int*)':
foo_mrmr_ensemble_surv.cpp:393:25: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int k=0; k< rep_boot; ++k){
~^~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:396:25: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int i=1;i<= size_boot;++i){
~^~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:400:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for( unsigned int i=0; i< size ; ++i ){
~^~~~~~
foo_mrmr_ensemble_surv.cpp:401:28: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for( unsigned int j=0; j< size ; ++j ){
~^~~~~~
foo_mrmr_ensemble_surv.cpp:412:24: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int i=0;i< rep_boot;++i){
~^~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:419:24: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int i=0;i< rep_boot;++i){
~^~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:387:10: warning: unused variable 'mim' [-Wunused-variable]
double *mim, *boot_val, *mat_info;
^~~
foo_mrmr_ensemble_surv.cpp: In function 'double mrnet_onegene(double*, int, int, int*, int, int)':
foo_mrmr_ensemble_surv.cpp:448:25: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int j=0;j< nbvar; j++){
~^~~~~~~
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: In function 'int verify_equivalentset_nparents(tree<int>&, tree<int>::pre_order_iterator, tree<int>::pre_order_iterator, tree<double>&, int)':
foo_mrmr_ensemble_surv.cpp:467:7: warning: unused variable 'found' [-Wunused-variable]
bool found=false;
^~~~~
foo_mrmr_ensemble_surv.cpp: In function 'void mrmr_ensemble_one_gene_remove(tree<int>&, tree<int>::pre_order_iterator, double*, int*, int, int, int, int, int, int, double, int*, int*, int*, double*, int*, double*, int*, int*, int*, int, int*)':
foo_mrmr_ensemble_surv.cpp:593:24: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int i=1;i<= nsamples;++i){
~^~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:596:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for( unsigned int i=0; i< n; ++i ){
~^~~
foo_mrmr_ensemble_surv.cpp:597:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for( unsigned int j=0; j< n; ++j ){
~^~~
foo_mrmr_ensemble_surv.cpp:604:24: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int k=0;k< max_elements ;++k){
~^~~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:646:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for (unsigned int i=0;i<=max_depth;++i){
~^~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:654:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int k=0;k< n;++k){
~^~~
foo_mrmr_ensemble_surv.cpp:657:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'const int' [-Wsign-compare]
for(unsigned int k=0;k<=max(res_tmp_new.depth(it_local),max_depth) ;++k){
~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:661:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int k=0;k< n;++k){
~^~~
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: In function 'SEXPREC* mrmr_cIndex_ensemble_remove(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
foo_mrmr_ensemble_surv.cpp:786:24: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'const int' [-Wsign-compare]
for(unsigned int i=0;i< *npredn;++i){
~^~~~~~~~~
foo_mrmr_ensemble_surv.cpp:820:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int k=0;k<length_res_old;k++){
~^~~~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:834:25: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int k=0;k<length_res;k++){
~^~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:839:7: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
if(i==(*npredn-1)){
~^~~~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:843:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int k=0;k<length_res;k++){
~^~~~~~~~~~~
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:859:9: warning: 'Rres' may be used uninitialized in this function [-Wmaybe-uninitialized]
return Rres;
^~~~
foo_mrmr_ensemble_surv.cpp:821:25: warning: 'res_old' may be used uninitialized in this function [-Wmaybe-uninitialized]
res_all[k]=res_old[k];
~~~~~~~~~^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition -c foo_mrmr_surv.cpp -o foo_mrmr_surv.o
foo_mrmr_surv.cpp: In function 'double get_correlation(double*, int*, int, int, int)':
foo_mrmr_surv.cpp:12:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for( unsigned int i=0; i< size; ++i ) {
~^~~~~~
foo_mrmr_surv.cpp:22:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for( unsigned int i=0; i< size; ++i ) {
~^~~~~~
foo_mrmr_surv.cpp: In function 'void build_mim_subset(double*, double*, int*, int, int, int*, int)':
foo_mrmr_surv.cpp:49:25: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int i=0; i< size_subset; ++i){
~^~~~~~~~~~~~~
foo_mrmr_surv.cpp:50:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int j=0; j< nvar; ++j){
~^~~~~~
foo_mrmr_surv.cpp:56:25: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int i=0; i< nvar; ++i){
~^~~~~~
foo_mrmr_surv.cpp:58:28: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
for(unsigned int j=i+1; j< nvar; ++j){
~^~~~~~
foo_mrmr_surv.cpp: In function 'double returnConcordanceIndexC(int*, int*, double*, int*, double*, int*, double*, int*, int*, int*, int*, int*)':
foo_mrmr_surv.cpp:146:10: warning: variable 'uhs' set but not used [-Wunused-but-set-variable]
double uhs[Ns];
^~~
foo_mrmr_surv.cpp:147:10: warning: variable 'rphs' set but not used [-Wunused-but-set-variable]
double rphs[Ns];
^~~~
foo_mrmr_surv.cpp: In function 'SEXPREC* mrmr_cIndex(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
foo_mrmr_surv.cpp:301:25: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'const int' [-Wsign-compare]
for(unsigned int i=0;i < *nsample; ++i){
~~^~~~~~~~~~
foo_mrmr_surv.cpp:341:19: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
for( int l=0; l<n; ++l )
~^~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition -c survcomp_init.cpp -o survcomp_init.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o survcomp.dll tmp.def concordance.index.o foo_mrmr_ensemble_surv.o foo_mrmr_surv.o survcomp_init.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR
installing to D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-survcomp/00new/survcomp/libs/x64
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'survcomp'
finding HTML links ... done
D.index html
balanced.hazard.ratio html
bhr.comp html
breastCancerData html
censor.time html
cindex.comp html
cindex.comp.meta html
combine.est html
combine.test html
concordance.index html
concordanceIndexC html
cvpl html
dindex.comp html
dindex.comp.meta html
fisherz html
forestplot.surv html
get_concordanceIndex_onevariable html
getsurv2 html
hazard.ratio html
hr.comp html
hr.comp.meta html
hr.comp2 html
iauc.comp html
ibsc.comp html
km.coxph.plot html
logpl html
mainz7g html
metaplot.surv html
finding level-2 HTML links ... done
mrmr.cindex html
mrmr.cindex.ensemble html
mrmr_cIndex html
mrmr_cIndex_ensemble_remove html
nki7g html
no.at.risk html
sbrier.score2proba html
score2proba html
survcomp-package html
td.sens.spec html
tdrocc html
test.hetero.est html
test.hetero.test html
transbig7g html
unt7g html
upp7g html
vdx7g html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (survcomp)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'metavizr' is missing or broken
done
survcomp.Rcheck/survcomp-Ex.timings
| name | user | system | elapsed | |
| D.index | 0.03 | 0.02 | 0.05 | |
| balanced.hazard.ratio | 0.02 | 0.00 | 0.01 | |
| bhr.comp | 0.02 | 0.00 | 0.02 | |
| breastCancerData | 0.31 | 0.04 | 0.35 | |
| censor.time | 0 | 0 | 0 | |
| cindex.comp | 0 | 0 | 0 | |
| cindex.comp.meta | 0 | 0 | 0 | |
| combine.est | 0 | 0 | 0 | |
| combine.test | 0 | 0 | 0 | |
| concordance.index | 0 | 0 | 0 | |
| cvpl | 0.12 | 0.00 | 0.12 | |
| dindex.comp | 0.02 | 0.00 | 0.02 | |
| dindex.comp.meta | 0.02 | 0.00 | 0.01 | |
| fisherz | 0 | 0 | 0 | |
| forestplot.surv | 0.03 | 0.00 | 0.03 | |
| getsurv2 | 0 | 0 | 0 | |
| hazard.ratio | 0.01 | 0.00 | 0.02 | |
| hr.comp | 0 | 0 | 0 | |
| hr.comp.meta | 0.02 | 0.00 | 0.01 | |
| hr.comp2 | 0 | 0 | 0 | |
| iauc.comp | 0.18 | 0.02 | 0.19 | |
| ibsc.comp | 0.17 | 0.00 | 0.17 | |
| km.coxph.plot | 0.03 | 0.00 | 0.03 | |
| logpl | 0.01 | 0.00 | 0.02 | |
| mainz7g | 0.14 | 0.00 | 0.14 | |
| metaplot.surv | 0 | 0 | 0 | |
| mrmr.cindex | 0 | 0 | 0 | |
| nki7g | 0.10 | 0.05 | 0.14 | |
| no.at.risk | 0 | 0 | 0 | |
| sbrier.score2proba | 0.21 | 0.00 | 0.21 | |
| score2proba | 0.01 | 0.00 | 0.01 | |
| td.sens.spec | 0 | 0 | 0 | |
| tdrocc | 0.16 | 0.00 | 0.16 | |
| test.hetero.est | 0 | 0 | 0 | |
| test.hetero.test | 0 | 0 | 0 | |
| transbig7g | 0.17 | 0.01 | 0.19 | |
| unt7g | 0.14 | 0.00 | 0.14 | |
| upp7g | 0.13 | 0.02 | 0.14 | |
| vdx7g | 0.12 | 0.01 | 0.14 | |