Mike Jiang
| Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023) |
| git_url: https://git.bioconductor.org/packages/flowCore |
| git_branch: RELEASE_3_16 |
| git_last_commit: 2bb3556 |
| git_last_commit_date: 2022-11-01 10:42:20 -0400 (Tue, 01 Nov 2022) |
| Back to Multiple platform build/check report for BioC 3.16: simplified long |
|
This page was generated on 2023-04-12 11:05:33 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (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 | ||||
|
To the developers/maintainers of the flowCore package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowCore.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. |
| Package 691/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| flowCore 2.10.0 (landing page) Mike Jiang
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: flowCore |
| Version: 2.10.0 |
| Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL flowCore |
| StartedAt: 2023-04-10 15:51:21 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 15:53:01 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 100.1 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL flowCore
###
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* installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library'
* installing *source* package 'flowCore' ...
** using staged installation
** libs
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c FastLogicle.cpp -o FastLogicle.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Hyperlog.cpp -o Hyperlog.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Logicle.cpp -o Logicle.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c biexponential.cpp -o biexponential.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c convertRawBytes.cpp -o convertRawBytes.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cpp11.cpp -o cpp11.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fcsTextParse.cpp -o fcsTextParse.o
In file included from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from fcsTextParse.cpp:9:
F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
194 | failed ************ (Pred::************
| ^
F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
199 | failed ************ (boost::mpl::not_<Pred>::************
| ^
In file included from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/function.hpp:30,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
from fcsTextParse.cpp:9:
F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
48 | template<class T> T * get_pointer(std::auto_ptr<T> const& p)
| ^~~~~~~~
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\locale_conv.h:41,
from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\locale:43,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string/classification.hpp:15,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:23,
from F:/biocbuild/bbs-3.16-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from fcsTextParse.cpp:9:
c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here
57 | template<typename> class auto_ptr;
| ^~~~~~~~
In file included from fcsTextParse.cpp:13:
F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include/cytolib/compensation.hpp:58:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
58 | if(valVec.size() != 1+n+n*n){
| ~~~~~~~~~~~~~~^~~~~~~~~~
F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include/cytolib/compensation.hpp:62:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
62 | if(valVec.size() == 1+n+2*n*n){
| ~~~~~~~~~~~~~~^~~~~~~~~~~~
F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include/cytolib/compensation.hpp:68:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
68 | for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
| ~~^~~~~~~~~~~~~~~~~~~~~
fcsTextParse.cpp: In function 'cpp11::writable::doubles_matrix<> string_to_spill(std::string)':
fcsTextParse.cpp:21:22: warning: comparison of integer expressions of different signedness: 'int' and 'const uword' {aka 'const long long unsigned int'} [-Wsign-compare]
21 | for (auto j = 0; j < spillover.n_cols; j++) {
| ~~^~~~~~~~~~~~~~~~~~
fcsTextParse.cpp:22:24: warning: comparison of integer expressions of different signedness: 'int' and 'const uword' {aka 'const long long unsigned int'} [-Wsign-compare]
22 | for (auto i = 0; i < spillover.n_rows; i++) {
| ~~^~~~~~~~~~~~~~~~~~
fcsTextParse.cpp: In function 'cpp11::sexp fcsTextParse(std::string, bool)':
fcsTextParse.cpp:142:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
142 | for (int i = 0; i < pairs.size(); i++) {
| ~~^~~~~~~~~~~~~~
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c hyperlogTransform.cpp -o hyperlogTransform.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c inPolygon.cpp -o inPolygon.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c inPolytope.cpp -o inPolytope.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c logicleTransform.cpp -o logicleTransform.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c poly_centroid.cpp -o poly_centroid.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sortBytes.cpp -o sortBytes.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c uint2double.cpp -o uint2double.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/cpp11/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c zeroin.cpp -o zeroin.o
g++ -shared -s -static-libgcc -o flowCore.dll tmp.def FastLogicle.o Hyperlog.o Logicle.o biexponential.o convertRawBytes.o cpp11.o fcsTextParse.o hyperlogTransform.o inPolygon.o inPolytope.o logicleTransform.o poly_centroid.o sortBytes.o uint2double.o zeroin.o F:/biocbuild/bbs-3.16-bioc/R/library/cytolib/lib/x64/libcytolib.a F:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/lib/x64/GatingSet.pb.o -LF:/biocbuild/bbs-3.16-bioc/R/library/RProtoBufLib/lib/x64 -lprotobuf -LF:/biocbuild/bbs-3.16-bioc/R/library/Rhdf5lib/lib/x64-ucrt -lhdf5_cpp -lhdf5 -lcurl -lssh2 -lssl -lcrypto -lwldap32 -lws2_32 -lcrypt32 -lsz -laec -lz -lpsapi -LF:/biocbuild/bbs-3.16-bioc/R/bin/x64 -lRlapack -LF:/biocbuild/bbs-3.16-bioc/R/bin/x64 -lRblas -lstdc++fs -lbcrypt -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
if [ `uname -s` = 'Darwin' ]; then install_name_tool -change /usr/local/clang4/lib/libc++.1.dylib /usr/lib/libc++.1.dylib flowCore.dll; fi
installing to F:/biocbuild/bbs-3.16-bioc/R/library/00LOCK-flowCore/00new/flowCore/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 (flowCore)