Multiple platform build/check report for BioC 3.21 - INSTALL results for BiocNeighbors on palomino7

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"	4748
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences"	4459
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences"	4398
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 BiocNeighbors on palomino7

To the developers/maintainers of the BiocNeighbors package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BiocNeighbors.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.
raw results
Summary

Package: BiocNeighbors
Version: 2.1.1
Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL BiocNeighbors
StartedAt: 2024-11-27 15:21:02 -0500 (Wed, 27 Nov 2024)
EndedAt: 2024-11-27 15:22:24 -0500 (Wed, 27 Nov 2024)
EllapsedTime: 82.4 seconds
RetCode: 0
Status: OK
Command output

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###
### Running command:
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###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL BiocNeighbors
###
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* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'BiocNeighbors' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
using C++17
g++  -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c RcppExports.cpp -o RcppExports.o
g++  -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c annoy.cpp -o annoy.o
In file included from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/knncolle_annoy/knncolle_annoy.hpp:10,
                 from annoy.cpp:15:
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h: In instantiation of 'S Annoy::AnnoyIndex<S, T, Distance, Random, ThreadedBuildPolicy>::_make_tree(const std::vector<T>&, bool, Random&, ThreadedBuildPolicy&) [with S = int; T = float; Distance = Annoy::Euclidean; Random = Annoy::Kiss64Random; ThreadedBuildPolicy = Annoy::AnnoyIndexSingleThreadedBuildPolicy]':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1188:30:   required from 'void Annoy::AnnoyIndex<S, T, Distance, Random, ThreadedBuildPolicy>::thread_build(int, int, ThreadedBuildPolicy&) [with S = int; T = float; Distance = Annoy::Euclidean; Random = Annoy::Kiss64Random; ThreadedBuildPolicy = Annoy::AnnoyIndexSingleThreadedBuildPolicy]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1410:24:   required from 'static void Annoy::AnnoyIndexSingleThreadedBuildPolicy::build(Annoy::AnnoyIndex<S, T, D, Random, Annoy::AnnoyIndexSingleThreadedBuildPolicy>*, int, int) [with S = int; T = float; D = Annoy::Euclidean; Random = Annoy::Kiss64Random]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:969:46:   required from 'bool Annoy::AnnoyIndex<S, T, Distance, Random, ThreadedBuildPolicy>::build(int, int, char**) [with S = int; T = float; Distance = Annoy::Euclidean; Random = Annoy::Kiss64Random; ThreadedBuildPolicy = Annoy::AnnoyIndexSingleThreadedBuildPolicy]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/knncolle_annoy/knncolle_annoy.hpp:265:23:   required from 'knncolle_annoy::AnnoyPrebuilt<Distance_, Dim_, Index_, Float_, InternalIndex_, InternalData_>::AnnoyPrebuilt(const Matrix_&, const knncolle_annoy::AnnoyOptions&) [with Matrix_ = knncolle::L2NormalizedMatrix<knncolle::SimpleMatrix<int, int, double> >; Distance_ = Annoy::Euclidean; Dim_ = int; Index_ = int; Float_ = double; InternalIndex_ = int; InternalData_ = float]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/knncolle_annoy/knncolle_annoy.hpp:359:16:   required from 'knncolle::Prebuilt<typename Matrix_::dimension_type, typename Matrix_::index_type, Float_>* knncolle_annoy::AnnoyBuilder<Distance_, Matrix_, Float_, InternalIndex_, InternalData_>::build_raw(const Matrix_&) const [with Distance_ = Annoy::Euclidean; Matrix_ = knncolle::L2NormalizedMatrix<knncolle::SimpleMatrix<int, int, double> >; Float_ = double; InternalIndex_ = int; InternalData_ = float; typename Matrix_::dimension_type = int; typename Matrix_::index_type = int]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/knncolle_annoy/knncolle_annoy.hpp:358:97:   required from here
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1308:29: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'std::vector<int>::size_type' {aka 'long long unsigned int'} [-Wformat=]
 1308 |         annoylib_showUpdate("\tNo hyperplane found (left has %ld children, right has %ld children)\n",
      |                             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1309 |           children_indices[0].size(), children_indices[1].size());
      |           ~~~~~~~~~~~~~~~~~~~~~~~~~~
      |                                   |
      |                                   std::vector<int>::size_type {aka long long unsigned int}
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:81:66: note: in definition of macro 'annoylib_showUpdate'
   81 |   #define annoylib_showUpdate(...) { __ERROR_PRINTER_OVERRIDE__( __VA_ARGS__ ); }
      |                                                                  ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1308:64: note: format string is defined here
 1308 |         annoylib_showUpdate("\tNo hyperplane found (left has %ld children, right has %ld children)\n",
      |                                                              ~~^
      |                                                                |
      |                                                                long int
      |                                                              %lld
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1308:29: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'std::vector<int>::size_type' {aka 'long long unsigned int'} [-Wformat=]
 1308 |         annoylib_showUpdate("\tNo hyperplane found (left has %ld children, right has %ld children)\n",
      |                             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1309 |           children_indices[0].size(), children_indices[1].size());
      |                                       ~~~~~~~~~~~~~~~~~~~~~~~~~~
      |                                                               |
      |                                                               std::vector<int>::size_type {aka long long unsigned int}
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:81:66: note: in definition of macro 'annoylib_showUpdate'
   81 |   #define annoylib_showUpdate(...) { __ERROR_PRINTER_OVERRIDE__( __VA_ARGS__ ); }
      |                                                                  ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1308:88: note: format string is defined here
 1308 |         annoylib_showUpdate("\tNo hyperplane found (left has %ld children, right has %ld children)\n",
      |                                                                                      ~~^
      |                                                                                        |
      |                                                                                        long int
      |                                                                                      %lld
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h: In instantiation of 'S Annoy::AnnoyIndex<S, T, Distance, Random, ThreadedBuildPolicy>::_make_tree(const std::vector<T>&, bool, Random&, ThreadedBuildPolicy&) [with S = int; T = float; Distance = Annoy::Manhattan; Random = Annoy::Kiss64Random; ThreadedBuildPolicy = Annoy::AnnoyIndexSingleThreadedBuildPolicy]':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1188:30:   required from 'void Annoy::AnnoyIndex<S, T, Distance, Random, ThreadedBuildPolicy>::thread_build(int, int, ThreadedBuildPolicy&) [with S = int; T = float; Distance = Annoy::Manhattan; Random = Annoy::Kiss64Random; ThreadedBuildPolicy = Annoy::AnnoyIndexSingleThreadedBuildPolicy]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1410:24:   required from 'static void Annoy::AnnoyIndexSingleThreadedBuildPolicy::build(Annoy::AnnoyIndex<S, T, D, Random, Annoy::AnnoyIndexSingleThreadedBuildPolicy>*, int, int) [with S = int; T = float; D = Annoy::Manhattan; Random = Annoy::Kiss64Random]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:969:46:   required from 'bool Annoy::AnnoyIndex<S, T, Distance, Random, ThreadedBuildPolicy>::build(int, int, char**) [with S = int; T = float; Distance = Annoy::Manhattan; Random = Annoy::Kiss64Random; ThreadedBuildPolicy = Annoy::AnnoyIndexSingleThreadedBuildPolicy]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/knncolle_annoy/knncolle_annoy.hpp:265:23:   required from 'knncolle_annoy::AnnoyPrebuilt<Distance_, Dim_, Index_, Float_, InternalIndex_, InternalData_>::AnnoyPrebuilt(const Matrix_&, const knncolle_annoy::AnnoyOptions&) [with Matrix_ = knncolle::SimpleMatrix<int, int, double>; Distance_ = Annoy::Manhattan; Dim_ = int; Index_ = int; Float_ = double; InternalIndex_ = int; InternalData_ = float]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/knncolle_annoy/knncolle_annoy.hpp:359:16:   required from 'knncolle::Prebuilt<typename Matrix_::dimension_type, typename Matrix_::index_type, Float_>* knncolle_annoy::AnnoyBuilder<Distance_, Matrix_, Float_, InternalIndex_, InternalData_>::build_raw(const Matrix_&) const [with Distance_ = Annoy::Manhattan; Matrix_ = knncolle::SimpleMatrix<int, int, double>; Float_ = double; InternalIndex_ = int; InternalData_ = float; typename Matrix_::dimension_type = int; typename Matrix_::index_type = int]'
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/knncolle_annoy/knncolle_annoy.hpp:358:97:   required from here
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1308:29: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'std::vector<int>::size_type' {aka 'long long unsigned int'} [-Wformat=]
 1308 |         annoylib_showUpdate("\tNo hyperplane found (left has %ld children, right has %ld children)\n",
      |                             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1309 |           children_indices[0].size(), children_indices[1].size());
      |           ~~~~~~~~~~~~~~~~~~~~~~~~~~
      |                                   |
      |                                   std::vector<int>::size_type {aka long long unsigned int}
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:81:66: note: in definition of macro 'annoylib_showUpdate'
   81 |   #define annoylib_showUpdate(...) { __ERROR_PRINTER_OVERRIDE__( __VA_ARGS__ ); }
      |                                                                  ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1308:64: note: format string is defined here
 1308 |         annoylib_showUpdate("\tNo hyperplane found (left has %ld children, right has %ld children)\n",
      |                                                              ~~^
      |                                                                |
      |                                                                long int
      |                                                              %lld
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1308:29: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'std::vector<int>::size_type' {aka 'long long unsigned int'} [-Wformat=]
 1308 |         annoylib_showUpdate("\tNo hyperplane found (left has %ld children, right has %ld children)\n",
      |                             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1309 |           children_indices[0].size(), children_indices[1].size());
      |                                       ~~~~~~~~~~~~~~~~~~~~~~~~~~
      |                                                               |
      |                                                               std::vector<int>::size_type {aka long long unsigned int}
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:81:66: note: in definition of macro 'annoylib_showUpdate'
   81 |   #define annoylib_showUpdate(...) { __ERROR_PRINTER_OVERRIDE__( __VA_ARGS__ ); }
      |                                                                  ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1308:88: note: format string is defined here
 1308 |         annoylib_showUpdate("\tNo hyperplane found (left has %ld children, right has %ld children)\n",
      |                                                                                      ~~^
      |                                                                                        |
      |                                                                                        long int
      |                                                                                      %lld
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h: In instantiation of 'bool Annoy::AnnoyIndex<S, T, Distance, Random, ThreadedBuildPolicy>::load(const char*, bool, char**) [with S = int; T = float; Distance = Annoy::Manhattan; Random = Annoy::Kiss64Random; ThreadedBuildPolicy = Annoy::AnnoyIndexSingleThreadedBuildPolicy]':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1069:8:   required from here
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1118:39: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector<int>::size_type' {aka 'long long unsigned int'} [-Wformat=]
 1118 |     if (_verbose) annoylib_showUpdate("found %lu roots with degree %d\n", _roots.size(), m);
      |                                       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  ~~~~~~~~~~~~~
      |                                                                                      |
      |                                                                                      std::vector<int>::size_type {aka long long unsigned int}
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:81:66: note: in definition of macro 'annoylib_showUpdate'
   81 |   #define annoylib_showUpdate(...) { __ERROR_PRINTER_OVERRIDE__( __VA_ARGS__ ); }
      |                                                                  ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1118:48: note: format string is defined here
 1118 |     if (_verbose) annoylib_showUpdate("found %lu roots with degree %d\n", _roots.size(), m);
      |                                              ~~^
      |                                                |
      |                                                long unsigned int
      |                                              %llu
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h: In instantiation of 'bool Annoy::AnnoyIndex<S, T, Distance, Random, ThreadedBuildPolicy>::load(const char*, bool, char**) [with S = int; T = float; Distance = Annoy::Euclidean; Random = Annoy::Kiss64Random; ThreadedBuildPolicy = Annoy::AnnoyIndexSingleThreadedBuildPolicy]':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1069:8:   required from here
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1118:39: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector<int>::size_type' {aka 'long long unsigned int'} [-Wformat=]
 1118 |     if (_verbose) annoylib_showUpdate("found %lu roots with degree %d\n", _roots.size(), m);
      |                                       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  ~~~~~~~~~~~~~
      |                                                                                      |
      |                                                                                      std::vector<int>::size_type {aka long long unsigned int}
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:81:66: note: in definition of macro 'annoylib_showUpdate'
   81 |   #define annoylib_showUpdate(...) { __ERROR_PRINTER_OVERRIDE__( __VA_ARGS__ ); }
      |                                                                  ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/annoy/annoylib.h:1118:48: note: format string is defined here
 1118 |     if (_verbose) annoylib_showUpdate("found %lu roots with degree %d\n", _roots.size(), m);
      |                                              ~~^
      |                                                |
      |                                                long unsigned int
      |                                              %llu
g++  -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c exhaustive.cpp -o exhaustive.o
g++  -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c find_mutual_nns.cpp -o find_mutual_nns.o
g++  -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c generics.cpp -o generics.o
g++  -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c hnsw.cpp -o hnsw.o
g++  -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c kmknn.cpp -o kmknn.o
g++  -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c vptree.cpp -o vptree.o
g++ -shared -s -static-libgcc -o BiocNeighbors.dll tmp.def RcppExports.o annoy.o exhaustive.o find_mutual_nns.o generics.o hnsw.o kmknn.o vptree.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-BiocNeighbors/00new/BiocNeighbors/libs/x64
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (BiocNeighbors)