Aaron Lun
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/BiocNeighbors |
| Branch: RELEASE_3_10 |
| Last Commit: 1fcb470 |
| Last Changed Date: 2020-02-29 00:44:32 -0400 (Sat, 29 Feb 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:30:46 -0400 (Wed, 15 Apr 2020).
| Package 153/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| BiocNeighbors 1.4.2 Aaron Lun
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | |
| Package: BiocNeighbors |
| Version: 1.4.2 |
| Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:BiocNeighbors.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings BiocNeighbors_1.4.2.tar.gz |
| StartedAt: 2020-04-15 01:34:17 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 01:44:54 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 636.9 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: BiocNeighbors.Rcheck |
| Warnings: 1 |
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###
### Running command:
###
### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:BiocNeighbors.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings BiocNeighbors_1.4.2.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/BiocNeighbors.Rcheck'
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'BiocNeighbors/DESCRIPTION' ... OK
* this is package 'BiocNeighbors' version '1.4.2'
* 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 'BiocNeighbors' can be installed ... WARNING
Found the following significant warnings:
kmknn.h:37:31: warning: 'Kmknn<BNManhattan>::centers' will be initialized after [-Wreorder]
kmknn.h:33:20: warning: 'neighbor_queue Kmknn<BNManhattan>::nearest' [-Wreorder]
kmknn.cpp:13:1: warning: when initialized here [-Wreorder]
kmknn.h:37:31: warning: 'Kmknn<BNEuclidean>::centers' will be initialized after [-Wreorder]
kmknn.h:33:20: warning: 'neighbor_queue Kmknn<BNEuclidean>::nearest' [-Wreorder]
See 'C:/Users/biocbuild/bbs-3.10-bioc/meat/BiocNeighbors.Rcheck/00install.out' for details.
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... 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 ... OK
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.10-bioc/R/library/BiocNeighbors/libs/i386/BiocNeighbors.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.10-bioc/R/library/BiocNeighbors/libs/x64/BiocNeighbors.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 ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
rangeFind-methods 5.04 2.16 7.20
findNeighbors 6.71 0.00 6.72
find-methods 5.05 0.55 5.59
findKNN 5.47 0.03 5.50
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
findNeighbors 5.42 0.00 5.42
rangeFind-methods 4.86 0.21 5.06
find-methods 4.54 0.47 5.01
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'testthat.R'
OK
** running tests for arch 'x64' ...
Running 'testthat.R'
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, 1 NOTE
See
'C:/Users/biocbuild/bbs-3.10-bioc/meat/BiocNeighbors.Rcheck/00check.log'
for details.
BiocNeighbors.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/BiocNeighbors_1.4.2.tar.gz && rm -rf BiocNeighbors.buildbin-libdir && mkdir BiocNeighbors.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=BiocNeighbors.buildbin-libdir BiocNeighbors_1.4.2.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL BiocNeighbors_1.4.2.zip && rm BiocNeighbors_1.4.2.tar.gz BiocNeighbors_1.4.2.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
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0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 59864 100 59864 0 0 1530k 0 --:--:-- --:--:-- --:--:-- 1719k
install for i386
* installing *source* package 'BiocNeighbors' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c annoy.cpp -o annoy.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c build_annoy.cpp -o build_annoy.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c build_hnsw.cpp -o build_hnsw.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c build_vptree.cpp -o build_vptree.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c distances.cpp -o distances.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c find_annoy.cpp -o find_annoy.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c find_hnsw.cpp -o find_hnsw.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c find_kmknn.cpp -o find_kmknn.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c find_vptree.cpp -o find_vptree.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c hnsw.cpp -o hnsw.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c kmknn.cpp -o kmknn.o
In file included from kmknn.cpp:1:0:
kmknn.cpp: In instantiation of 'Kmknn<Distance>::Kmknn(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::List, bool) [with Distance = BNManhattan; Rcpp::NumericMatrix = Rcpp::Matrix<14>; Rcpp::List = Rcpp::Vector<19>]':
kmknn.cpp:218:16: required from here
kmknn.h:37:31: warning: 'Kmknn<BNManhattan>::centers' will be initialized after [-Wreorder]
const Rcpp::NumericMatrix centers;
^
kmknn.h:33:20: warning: 'neighbor_queue Kmknn<BNManhattan>::nearest' [-Wreorder]
neighbor_queue nearest;
^
kmknn.cpp:13:1: warning: when initialized here [-Wreorder]
Kmknn<Distance>::Kmknn(Rcpp::NumericMatrix ex, Rcpp::NumericMatrix cen, Rcpp::List info, bool warn_ties) :
^
In file included from kmknn.cpp:1:0:
kmknn.cpp: In instantiation of 'Kmknn<Distance>::Kmknn(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::List, bool) [with Distance = BNEuclidean; Rcpp::NumericMatrix = Rcpp::Matrix<14>; Rcpp::List = Rcpp::Vector<19>]':
kmknn.cpp:219:16: required from here
kmknn.h:37:31: warning: 'Kmknn<BNEuclidean>::centers' will be initialized after [-Wreorder]
const Rcpp::NumericMatrix centers;
^
kmknn.h:33:20: warning: 'neighbor_queue Kmknn<BNEuclidean>::nearest' [-Wreorder]
neighbor_queue nearest;
^
kmknn.cpp:13:1: warning: when initialized here [-Wreorder]
Kmknn<Distance>::Kmknn(Rcpp::NumericMatrix ex, Rcpp::NumericMatrix cen, Rcpp::List info, bool warn_ties) :
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c query_annoy.cpp -o query_annoy.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c query_hnsw.cpp -o query_hnsw.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c query_kmknn.cpp -o query_kmknn.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c query_vptree.cpp -o query_vptree.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c utils.cpp -o utils.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c vptree.cpp -o vptree.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o BiocNeighbors.dll tmp.def RcppExports.o annoy.o build_annoy.o build_hnsw.o build_vptree.o distances.o find_annoy.o find_hnsw.o find_kmknn.o find_vptree.o hnsw.o kmknn.o query_annoy.o query_hnsw.o query_kmknn.o query_vptree.o utils.o vptree.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/BiocNeighbors.buildbin-libdir/00LOCK-BiocNeighbors/00new/BiocNeighbors/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'BiocNeighbors'
finding HTML links ... done
AnnoyIndex html
AnnoyParam html
BiocNeighborIndex html
BiocNeighborParam html
BiocNeighbors-algorithms html
BiocNeighbors-raw-index html
BiocNeighbors-ties html
HnswIndex html
HnswParam html
KmknnIndex html
KmknnParam html
VptreeIndex html
VptreeParam html
buildAnnoy html
buildHnsw html
buildIndex html
buildKmknn html
buildVptree html
find-methods html
finding level-2 HTML links ... done
findKNN html
findNeighbors html
query-methods html
queryKNN html
queryNeighbors html
rangeFind-methods html
rangeQuery-methods 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
install for x64
* installing *source* package 'BiocNeighbors' ...
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c annoy.cpp -o annoy.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c build_annoy.cpp -o build_annoy.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c build_hnsw.cpp -o build_hnsw.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c build_vptree.cpp -o build_vptree.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c distances.cpp -o distances.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c find_annoy.cpp -o find_annoy.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c find_hnsw.cpp -o find_hnsw.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c find_kmknn.cpp -o find_kmknn.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c find_vptree.cpp -o find_vptree.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c hnsw.cpp -o hnsw.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c kmknn.cpp -o kmknn.o
In file included from kmknn.cpp:1:0:
kmknn.cpp: In instantiation of 'Kmknn<Distance>::Kmknn(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::List, bool) [with Distance = BNManhattan; Rcpp::NumericMatrix = Rcpp::Matrix<14>; Rcpp::List = Rcpp::Vector<19>]':
kmknn.cpp:218:16: required from here
kmknn.h:37:31: warning: 'Kmknn<BNManhattan>::centers' will be initialized after [-Wreorder]
const Rcpp::NumericMatrix centers;
^
kmknn.h:33:20: warning: 'neighbor_queue Kmknn<BNManhattan>::nearest' [-Wreorder]
neighbor_queue nearest;
^
kmknn.cpp:13:1: warning: when initialized here [-Wreorder]
Kmknn<Distance>::Kmknn(Rcpp::NumericMatrix ex, Rcpp::NumericMatrix cen, Rcpp::List info, bool warn_ties) :
^
In file included from kmknn.cpp:1:0:
kmknn.cpp: In instantiation of 'Kmknn<Distance>::Kmknn(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::List, bool) [with Distance = BNEuclidean; Rcpp::NumericMatrix = Rcpp::Matrix<14>; Rcpp::List = Rcpp::Vector<19>]':
kmknn.cpp:219:16: required from here
kmknn.h:37:31: warning: 'Kmknn<BNEuclidean>::centers' will be initialized after [-Wreorder]
const Rcpp::NumericMatrix centers;
^
kmknn.h:33:20: warning: 'neighbor_queue Kmknn<BNEuclidean>::nearest' [-Wreorder]
neighbor_queue nearest;
^
kmknn.cpp:13:1: warning: when initialized here [-Wreorder]
Kmknn<Distance>::Kmknn(Rcpp::NumericMatrix ex, Rcpp::NumericMatrix cen, Rcpp::List info, bool warn_ties) :
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c query_annoy.cpp -o query_annoy.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c query_hnsw.cpp -o query_hnsw.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c query_kmknn.cpp -o query_kmknn.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c query_vptree.cpp -o query_vptree.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c utils.cpp -o utils.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppAnnoy/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppHNSW/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c vptree.cpp -o vptree.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o BiocNeighbors.dll tmp.def RcppExports.o annoy.o build_annoy.o build_hnsw.o build_vptree.o distances.o find_annoy.o find_hnsw.o find_kmknn.o find_vptree.o hnsw.o kmknn.o query_annoy.o query_hnsw.o query_kmknn.o query_vptree.o utils.o vptree.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/BiocNeighbors.buildbin-libdir/BiocNeighbors/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BiocNeighbors' as BiocNeighbors_1.4.2.zip
* DONE (BiocNeighbors)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'BiocNeighbors' successfully unpacked and MD5 sums checked
|
BiocNeighbors.Rcheck/tests_i386/testthat.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(BiocNeighbors)
> test_check("BiocNeighbors")
== testthat results ===========================================================
[ OK: 2876 | SKIPPED: 0 | WARNINGS: 34 | FAILED: 0 ]
>
> proc.time()
user system elapsed
151.54 17.76 251.07
|
BiocNeighbors.Rcheck/tests_x64/testthat.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(BiocNeighbors)
> test_check("BiocNeighbors")
== testthat results ===========================================================
[ OK: 2876 | SKIPPED: 0 | WARNINGS: 34 | FAILED: 0 ]
>
> proc.time()
user system elapsed
111.67 15.81 211.79
|
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BiocNeighbors.Rcheck/examples_i386/BiocNeighbors-Ex.timings
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BiocNeighbors.Rcheck/examples_x64/BiocNeighbors-Ex.timings
|