Back to Multiple platform build/check report for BioC 3.16:   simplified   long
ABCDEFGHIJKLMNOPQR[S]TUVWXYZ

This page was generated on 2023-04-12 11:05:54 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
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

INSTALL results for survcomp on palomino4


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? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1997/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
survcomp 1.48.0  (landing page)
Benjamin Haibe-Kains
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/survcomp
git_branch: RELEASE_3_16
git_last_commit: 85135e0
git_last_commit_date: 2022-11-01 11:05:46 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: survcomp
Version: 1.48.0
Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL survcomp
StartedAt: 2023-04-10 16:52:20 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 16:52:39 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 19.0 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL survcomp
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library'
* installing *source* package 'survcomp' ...
** using staged installation
** libs
gcc  -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG     -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c concordance.index.c -o concordance.index.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG     -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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]
   12 |  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]
   22 |  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]
  106 |   double uhs[Ns];
      |          ^~~
foo_mrmr_ensemble_surv.cpp:107:10: warning: variable 'rphs' set but not used [-Wunused-but-set-variable]
  107 |   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]
  202 |  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]
  203 |   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]
  214 |  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]
  216 |   for(unsigned int j=i+1; j< nvar-1; ++j){
      |                           ~^~~~~~~~
foo_mrmr_ensemble_surv.cpp:191:17: warning: unused variable 'msurv_x' [-Wunused-variable]
  191 |  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]
  191 |  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]
  351 |   int cnt_back=cnt2;
      |       ^~~~~~~~
foo_mrmr_ensemble_surv.cpp:286:7: warning: unused variable 'nsub' [-Wunused-variable]
  286 |  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]
  393 |  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]
  396 |   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]
  400 |   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]
  401 |    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]
  412 |  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]
  419 |  for(unsigned int i=0;i< rep_boot;++i){
      |                       ~^~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:387:10: warning: unused variable 'mim' [-Wunused-variable]
  387 |  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]
  448 |   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]
  437 |  unsigned int jmax;
      |               ^~~~
foo_mrmr_ensemble_surv.cpp:439:9: warning: unused variable 'max_val' [-Wunused-variable]
  439 |  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]
  467 |  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]
  593 |  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]
  596 |  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]
  597 |   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]
  604 |  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]
  646 |    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]
  654 |    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]
  657 |    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]
  661 |    for(unsigned int k=0;k< n;++k){
      |                         ~^~~
foo_mrmr_ensemble_surv.cpp:578:24: warning: unused variable 'nsamples_boot' [-Wunused-variable]
  578 |  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]
  578 |  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]
  578 |  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]
  579 |  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]
  579 |  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]
  786 |  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]
  820 |    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]
  834 |   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]
  839 |   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]
  843 |    for(unsigned int k=0;k<length_res;k++){
      |                         ~^~~~~~~~~~~
foo_mrmr_ensemble_surv.cpp:801:13: warning: unused variable 'cnt2' [-Wunused-variable]
  801 |   int cnt=1,cnt2=0;
      |             ^~~~
foo_mrmr_ensemble_surv.cpp:804:7: warning: unused variable 'rootdepth' [-Wunused-variable]
  804 |   int rootdepth=res_tree.depth(it_final);
      |       ^~~~~~~~~
foo_mrmr_ensemble_surv.cpp:817:7: warning: unused variable 'ind' [-Wunused-variable]
  817 |   int ind=0;
      |       ^~~
foo_mrmr_ensemble_surv.cpp:733:30: warning: unused variable 'res_all' [-Wunused-variable]
  733 |  int *predn, *rep_boot,*res,*res_all,*res_all2, *namat;
      |                              ^~~~~~~
foo_mrmr_ensemble_surv.cpp:733:39: warning: unused variable 'res_all2' [-Wunused-variable]
  733 |  int *predn, *rep_boot,*res,*res_all,*res_all2, *namat;
      |                                       ^~~~~~~~
foo_mrmr_ensemble_surv.cpp:734:6: warning: unused variable 'vec_tmp' [-Wunused-variable]
  734 |  int vec_tmp;
      |      ^~~~~~~
foo_mrmr_ensemble_surv.cpp:859:9: warning: 'Rres' may be used uninitialized in this function [-Wmaybe-uninitialized]
  859 |  return Rres;
      |         ^~~~
foo_mrmr_ensemble_surv.cpp:821:15: warning: 'res_old' may be used uninitialized in this function [-Wmaybe-uninitialized]
  821 |     res_all[k]=res_old[k];
      |     ~~~~~~~~~~^~~~~~~~~~~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG     -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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]
   12 |  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]
   22 |  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]
   49 |  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]
   50 |   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]
   56 |  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]
   58 |   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]
  146 |   double uhs[Ns];
      |          ^~~
foo_mrmr_surv.cpp:147:10: warning: variable 'rphs' set but not used [-Wunused-but-set-variable]
  147 |   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]
  301 |  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]
  341 |    for( int l=0; l<n; ++l )
      |                  ~^~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG     -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c survcomp_init.cpp -o survcomp_init.o
g++ -std=gnu++14 -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:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.16-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.16-bioc/R/library/00LOCK-survcomp/00new/survcomp/libs/x64
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (survcomp)