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This page was generated on 2021-10-15 15:05:51 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the runibic package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/runibic.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 1654/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
runibic 1.14.0 (landing page) Patryk Orzechowski
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | ERROR | ERROR | skipped | skipped | |||||||||
Package: runibic |
Version: 1.14.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL runibic |
StartedAt: 2021-10-14 06:17:00 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 06:17:36 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 35.6 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL runibic ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘runibic’ ... ** using staged installation ** libs g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -c GlobalDefs.cpp -o GlobalDefs.o GlobalDefs.cpp: In function ‘bool check_seed(int, int, int, const std::vector<BicBlock*>&, int, int)’: GlobalDefs.cpp:69:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 69 | for (i=0; i<vecBlk[ind]->genes.size(); i++){ | ~^~~~~~~~~~~~~~~~~~~~~~~~~~ GlobalDefs.cpp:76:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 76 | for (i=0; i<vecBlk[ind]->genes.size(); i++){ | ~^~~~~~~~~~~~~~~~~~~~~~~~~~ GlobalDefs.cpp: In function ‘void block_init(int, int, int, BicBlock*, std::vector<int>&, std::vector<int>&, std::vector<bool>&, int, int*, std::vector<long double>&, Params*, std::vector<std::vector<int> >&, std::vector<std::vector<int> >*)’: GlobalDefs.cpp:138:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 138 | for (auto i = 0; i < (*inputData)[t0].size() ;i++){ | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ GlobalDefs.cpp:152:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 152 | for(auto i=0;i<(*inputData)[j].size();i++) | ~^~~~~~~~~~~~~~~~~~~~~~~ GlobalDefs.cpp:117:7: warning: unused variable ‘colNum’ [-Wunused-variable] 117 | int colNum = gParameters.ColNumber; | ^~~~~~ GlobalDefs.cpp: In function ‘std::vector<int> getGenesFullLCS(const std::vector<int>&, const std::vector<int>&)’: GlobalDefs.cpp:240:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 240 | for(auto i=0;i<s1.size()+1;i++) { | ~^~~~~~~~~~~~ GlobalDefs.cpp:246:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 246 | for(auto i=0; i<s1.size()+1; i++) { | ~^~~~~~~~~~~~ GlobalDefs.cpp:250:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 250 | for(auto j=0; j<s2.size()+1; j++) { | ~^~~~~~~~~~~~ GlobalDefs.cpp:255:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 255 | for(auto i=1; i<s1.size()+1; i++) { | ~^~~~~~~~~~~~ GlobalDefs.cpp:256:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 256 | for(auto j=1; j<s2.size()+1; j++) { | ~^~~~~~~~~~~~ GlobalDefs.cpp:273:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 273 | for (auto j=1;j<s2.size()+1;j++) { | ~^~~~~~~~~~~~ GlobalDefs.cpp:284:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 284 | for (auto i=1;i<s1.size()+1;i++) { | ~^~~~~~~~~~~~ GlobalDefs.cpp:285:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 285 | for (auto j=1;j<s2.size()+1;j++) { | ~^~~~~~~~~~~~ GlobalDefs.cpp:294:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 294 | for(auto i=0;i<s1.size()+1;i++) { | ~^~~~~~~~~~~~ GlobalDefs.cpp:232:16: warning: unused variable ‘rank’ [-Wunused-variable] 232 | int maxvalue,rank; | ^~~~ GlobalDefs.cpp: In function ‘void internalPairwiseLCS(std::vector<int>&, std::vector<int>&, std::vector<std::vector<int> >&)’: GlobalDefs.cpp:336:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 336 | for (auto i=0; i<x.size()+1; i++) { | ~^~~~~~~~~~~ GlobalDefs.cpp:341:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 341 | for (auto j=0; j<y.size()+1; j++) { | ~^~~~~~~~~~~ GlobalDefs.cpp:344:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 344 | for(auto i=1; i<x.size()+1; i++) { | ~^~~~~~~~~~~ GlobalDefs.cpp:345:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 345 | for(auto j=1; j<y.size()+1; j++) { | ~^~~~~~~~~~~ In file included from GlobalDefs.cpp:34: fibpriv.h: At global scope: fibpriv.h:54:13: warning: ‘void fh_initheap(fibheap*)’ declared ‘static’ but never defined [-Wunused-function] 54 | static void fh_initheap(struct fibheap *); | ^~~~~~~~~~~ fibpriv.h:55:13: warning: ‘void fh_insertrootlist(fibheap*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 55 | static void fh_insertrootlist(struct fibheap *, struct fibheap_el *); | ^~~~~~~~~~~~~~~~~ fibpriv.h:56:13: warning: ‘void fh_removerootlist(fibheap*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 56 | static void fh_removerootlist(struct fibheap *, struct fibheap_el *); | ^~~~~~~~~~~~~~~~~ fibpriv.h:57:13: warning: ‘void fh_consolidate(fibheap*)’ declared ‘static’ but never defined [-Wunused-function] 57 | static void fh_consolidate(struct fibheap *); | ^~~~~~~~~~~~~~ fibpriv.h:58:13: warning: ‘void fh_heaplink(fibheap*, fibheap_el*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 58 | static void fh_heaplink(struct fibheap *h, struct fibheap_el *y, | ^~~~~~~~~~~ fibpriv.h:60:13: warning: ‘void fh_cut(fibheap*, fibheap_el*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 60 | static void fh_cut(struct fibheap *, struct fibheap_el *, struct fibheap_el *); | ^~~~~~ fibpriv.h:61:13: warning: ‘void fh_cascading_cut(fibheap*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 61 | static void fh_cascading_cut(struct fibheap *, struct fibheap_el *); | ^~~~~~~~~~~~~~~~ fibpriv.h:62:27: warning: ‘fibheap_el* fh_extractminel(fibheap*)’ declared ‘static’ but never defined [-Wunused-function] 62 | static struct fibheap_el *fh_extractminel(struct fibheap *); | ^~~~~~~~~~~~~~~ fibpriv.h:63:13: warning: ‘void fh_checkcons(fibheap*)’ declared ‘static’ but never defined [-Wunused-function] 63 | static void fh_checkcons(struct fibheap *h); | ^~~~~~~~~~~~ fibpriv.h:64:13: warning: ‘void fh_destroyheap(fibheap*)’ declared ‘static’ but never defined [-Wunused-function] 64 | static void fh_destroyheap(struct fibheap *h); | ^~~~~~~~~~~~~~ fibpriv.h:65:12: warning: ‘int fh_compare(fibheap*, fibheap_el*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 65 | static int fh_compare(struct fibheap *h, struct fibheap_el *a, | ^~~~~~~~~~ fibpriv.h:67:12: warning: ‘int fh_comparedata(fibheap*, int, void*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 67 | static int fh_comparedata(struct fibheap *h, int key, void *data, | ^~~~~~~~~~~~~~ fibpriv.h:69:13: warning: ‘void fh_insertel(fibheap*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 69 | static void fh_insertel(struct fibheap *h, struct fibheap_el *x); | ^~~~~~~~~~~ fibpriv.h:70:13: warning: ‘void fh_deleteel(fibheap*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 70 | static void fh_deleteel(struct fibheap *h, struct fibheap_el *x); | ^~~~~~~~~~~ fibpriv.h:86:27: warning: ‘fibheap_el* fhe_newelem()’ declared ‘static’ but never defined [-Wunused-function] 86 | static struct fibheap_el *fhe_newelem(void); | ^~~~~~~~~~~ fibpriv.h:87:13: warning: ‘void fhe_initelem(fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 87 | static void fhe_initelem(struct fibheap_el *); | ^~~~~~~~~~~~ fibpriv.h:88:13: warning: ‘void fhe_insertafter(fibheap_el*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 88 | static void fhe_insertafter(struct fibheap_el *a, struct fibheap_el *b); | ^~~~~~~~~~~~~~~ fibpriv.h:89:20: warning: ‘void fhe_insertbefore(fibheap_el*, fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 89 | static inline void fhe_insertbefore(struct fibheap_el *a, struct fibheap_el *b); | ^~~~~~~~~~~~~~~~ fibpriv.h:90:27: warning: ‘fibheap_el* fhe_remove(fibheap_el*)’ declared ‘static’ but never defined [-Wunused-function] 90 | static struct fibheap_el *fhe_remove(struct fibheap_el *a); | ^~~~~~~~~~ fibpriv.h:96:19: warning: ‘int ceillog2(unsigned int)’ declared ‘static’ but never defined [-Wunused-function] 96 | static inline int ceillog2(unsigned int a); | ^~~~~~~~ GlobalDefs.cpp: In function ‘void block_init(int, int, int, BicBlock*, std::vector<int>&, std::vector<int>&, std::vector<bool>&, int, int*, std::vector<long double>&, Params*, std::vector<std::vector<int> >&, std::vector<std::vector<int> >*)’: GlobalDefs.cpp:192:15: warning: ‘pvalue’ may be used uninitialized in this function [-Wmaybe-uninitialized] 192 | pvalue=pvalue+poisson; | ~~~~~~^~~~~~~~~~~~~~~ g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -c fib.c -o fib.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -c runibic.cpp -o runibic.o runibic.cpp: In function ‘Rcpp::List calculateLCS(Rcpp::IntegerMatrix, bool)’: runibic.cpp:329:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 329 | for (auto i = 0; i < discreteInputData.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ runibic.cpp:358:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<triple>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 358 | for(auto i = 0; i < out.size(); i++) | ~~^~~~~~~~~~~~ runibic.cpp: In function ‘Rcpp::List cluster(Rcpp::IntegerMatrix, Rcpp::IntegerMatrix, Rcpp::IntegerVector, Rcpp::IntegerVector, Rcpp::IntegerVector, int, int)’: runibic.cpp:417:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 417 | for (auto i = 0; i < discreteInputData.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ runibic.cpp:498:18: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 498 | for(k = 0; k < components; k++) { | ~~^~~~~~~~~~~~ runibic.cpp:507:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 507 | if(components > vecGenes.size()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ runibic.cpp:513:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 513 | for (auto ki=0; ki < vecGenes.size() ; ki++) { | ~~~^~~~~~~~~~~~~~~~~ runibic.cpp:567:13: warning: unused variable ‘temp’ [-Wunused-variable] 567 | int temp; | ^~~~ runibic.cpp:597:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 597 | for (auto i = 0; i < discreteInputData[vecGenes[0]].size() ;i++){ | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runibic.cpp:621:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 621 | for (auto i = 0; i < discreteInputData[ki].size() ;i++){ | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runibic.cpp:700:26: warning: comparison of integer expressions of different signedness: ‘std::vector<BicBlock*>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 700 | if (arrBlocks.size() == gParameters.SchBlock) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ runibic.cpp:719:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<BicBlock*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 719 | while (i < arrBlocks.size() && j < n) { | ~~^~~~~~~~~~~~~~~~~~ runibic.cpp:755:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<BicBlock*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 755 | for(auto ind =0; ind<arrBlocks.size(); ind++) | ~~~^~~~~~~~~~~~~~~~~ g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.13-bioc/R/lib -L/usr/local/lib -o runibic.so GlobalDefs.o RcppExports.o fib.o runibic.o -fopenmp -L/home/biocbuild/bbs-3.13-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-runibic/00new/runibic/libs ** R ** 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 (runibic)