| Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:05:56 -0400 (Fri, 15 Oct 2021).
|
To the developers/maintainers of the affxparser package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/affxparser.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 22/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| affxparser 1.64.1 (landing page) Kasper Daniel Hansen
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | WARNINGS |  | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: affxparser |
| Version: 1.64.1 |
| Command: C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/affxparser_1.64.1.tar.gz && rm -rf affxparser.buildbin-libdir && mkdir affxparser.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=affxparser.buildbin-libdir affxparser_1.64.1.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL affxparser_1.64.1.zip && rm affxparser_1.64.1.tar.gz affxparser_1.64.1.zip |
| StartedAt: 2021-10-14 07:13:04 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 07:22:24 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 559.9 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/affxparser_1.64.1.tar.gz && rm -rf affxparser.buildbin-libdir && mkdir affxparser.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=affxparser.buildbin-libdir affxparser_1.64.1.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL affxparser_1.64.1.zip && rm affxparser_1.64.1.tar.gz affxparser_1.64.1.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
1 877k 1 16227 0 0 136k 0 0:00:06 --:--:-- 0:00:06 136k
100 877k 100 877k 0 0 2552k 0 --:--:-- --:--:-- --:--:-- 2551k
install for i386
* installing *source* package 'affxparser' ...
** using staged installation
** libs
rm -f fusion_sdk/calvin_files/data/src/CDFData.o fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.o fusion_sdk/calvin_files/data/src/CDFProbeInformation.o fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.o fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.o fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.o fusion_sdk/calvin_files/data/src/CELData.o fusion_sdk/calvin_files/data/src/CHPBackgroundZone.o fusion_sdk/calvin_files/data/src/CHPData.o fusion_sdk/calvin_files/data/src/CHPExpressionEntry.o fusion_sdk/calvin_files/data/src/CHPMultiDataData.o fusion_sdk/calvin_files/data/src/CHPTilingData.o fusion_sdk/calvin_files/data/src/CHPQuantificationData.o fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.o fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.o fusion_sdk/calvin_files/data/src/CHPUniversalEntry.o fusion_sdk/calvin_files/data/src/ColumnInfo.o fusion_sdk/calvin_files/data/src/DataGroup.o fusion_sdk/calvin_files/data/src/DataGroupHeader.o fusion_sdk/calvin_files/data/src/DataSet.o fusion_sdk/calvin_files/data/src/DataSetHeader.o fusion_sdk/calvin_files/data/src/FileHeader.o fusion_sdk/calvin_files/data/src/GenericData.o fusion_sdk/calvin_files/data/src/GenericDataHeader.o fusion_sdk/calvin_files/exception/src/ExceptionBase.o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.o fusion_sdk/calvin_files/fusion/src/FusionCDFData.o fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o fusion_sdk/calvin_files/fusion/src/FusionCELData.o fusion_sdk/calvin_files/fusion/src/FusionCHPData.o fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.o fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.o fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.o fusion_sdk/calvin_files/parsers/src/CDFFileReader.o fusion_sdk/calvin_files/parsers/src/CelFileReader.o fusion_sdk/calvin_files/parsers/src/CHPFileReader.o fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.o fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.o fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.o fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.o fusion_sdk/calvin_files/parsers/src/DataGroupReader.o fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.o fusion_sdk/calvin_files/parsers/src/DataSetReader.o fusion_sdk/calvin_files/parsers/src/FileHeaderReader.o fusion_sdk/calvin_files/parsers/src/FileInput.o fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.o fusion_sdk/calvin_files/parsers/src/GenericFileReader.o fusion_sdk/calvin_files/utils/src/AffymetrixGuid.o fusion_sdk/calvin_files/utils/src/DateTime.o fusion_sdk/calvin_files/utils/src/FileUtils.o fusion_sdk/calvin_files/utils/src/StringUtils.o fusion_sdk/calvin_files/utils/src/checksum.o fusion_sdk/file/BPMAPFileData.o fusion_sdk/file/BPMAPFileWriter.o fusion_sdk/file/CDFFileData.o fusion_sdk/file/CELFileData.o fusion_sdk/file/CHPFileData.o fusion_sdk/file/FileIO.o fusion_sdk/file/FileWriter.o fusion_sdk/file/TsvFile/ClfFile.o fusion_sdk/file/TsvFile/PgfFile.o fusion_sdk/file/TsvFile/TsvFile.o fusion_sdk/util/AffxByteArray.o fusion_sdk/util/AffxConv.o fusion_sdk/util/MsgStream.o fusion_sdk/util/Util.o fusion_sdk/util/Err.o fusion_sdk/util/Fs.o fusion_sdk/util/Verbose.o fusion_sdk/util/RowFile.o fusion_sdk/util/TableFile.o fusion_sdk/util/Convert.o R_affx_cel_parser.o R_affx_cdf_parser.o R_affx_cdf_extras.o R_affx_bpmap_parser.o R_affx_clf_pgf_parser.o R_affx_chp_parser.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFData.cpp -o fusion_sdk/calvin_files/data/src/CDFData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/data/src/CDFData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/data/src/CDFData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFProbeInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFProbeInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataSet.h:28,
from fusion_sdk/calvin_files/data/src/CDFProbeInformation.h:30,
from fusion_sdk/calvin_files/data/src/CDFProbeInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeInformation.h:27,
from fusion_sdk/calvin_files/data/src/CDFProbeInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataSet.h:28,
from fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.h:27,
from fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/DataSet.h:25,
from fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.h:27,
from fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataSet.h:28,
from fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.h:31,
from fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.h:25,
from fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CELData.cpp -o fusion_sdk/calvin_files/data/src/CELData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/data/src/CELData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/data/src/CELData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPBackgroundZone.cpp -o fusion_sdk/calvin_files/data/src/CHPBackgroundZone.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPData.cpp -o fusion_sdk/calvin_files/data/src/CHPData.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPExpressionEntry.cpp -o fusion_sdk/calvin_files/data/src/CHPExpressionEntry.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp -o fusion_sdk/calvin_files/data/src/CHPMultiDataData.o
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp: In member function 'void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int32_t, const std::vector<affymetrix_calvin_io::ColumnInfo>&, const wstring&)':
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:427:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:429:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
^~~~~~~~~~~~~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp: In member function 'void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int, int, int, const wstring&)':
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:457:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:459:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
^~~~~~~~~~~~~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp: In member function 'void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int, int, int, int, const wstring&)':
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:482:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:484:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
^~~~~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPTilingData.cpp -o fusion_sdk/calvin_files/data/src/CHPTilingData.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPQuantificationData.cpp -o fusion_sdk/calvin_files/data/src/CHPQuantificationData.o
fusion_sdk/calvin_files/data/src/CHPQuantificationData.cpp: In member function 'void affymetrix_calvin_io::CHPQuantificationData::AddColumns(affymetrix_calvin_io::DataSetHeader&, bool)':
fusion_sdk/calvin_files/data/src/CHPQuantificationData.cpp:144:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPQuantificationData.cpp:146:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
hdr.AddFloatColumn(QUANTIFICATION_QUANTIFICATION_NAME);
^~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.cpp -o fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.o
fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.cpp: In member function 'void affymetrix_calvin_io::CHPQuantificationDetectionData::AddColumns(affymetrix_calvin_io::DataSetHeader&, bool)':
fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.cpp:151:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.cpp:153:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
hdr.AddFloatColumn(QUANTIFICATION_DETECTION_QUANTIFICATION_NAME);
^~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.cpp -o fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPUniversalEntry.cpp -o fusion_sdk/calvin_files/data/src/CHPUniversalEntry.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/ColumnInfo.cpp -o fusion_sdk/calvin_files/data/src/ColumnInfo.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/DataGroup.cpp -o fusion_sdk/calvin_files/data/src/DataGroup.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/DataGroup.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/DataGroup.h:28,
from fusion_sdk/calvin_files/data/src/DataGroup.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/DataGroupHeader.cpp -o fusion_sdk/calvin_files/data/src/DataGroupHeader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/DataSet.cpp -o fusion_sdk/calvin_files/data/src/DataSet.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataSet.h:28,
from fusion_sdk/calvin_files/data/src/DataSet.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/DataSet.h:25,
from fusion_sdk/calvin_files/data/src/DataSet.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/DataSetHeader.cpp -o fusion_sdk/calvin_files/data/src/DataSetHeader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/FileHeader.cpp -o fusion_sdk/calvin_files/data/src/FileHeader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/GenericData.cpp -o fusion_sdk/calvin_files/data/src/GenericData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/data/src/GenericData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/data/src/GenericData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/GenericDataHeader.cpp -o fusion_sdk/calvin_files/data/src/GenericDataHeader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/exception/src/ExceptionBase.cpp -o fusion_sdk/calvin_files/exception/src/ExceptionBase.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp -o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.h:27,
from fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp:22:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.h:27,
from fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp:22:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.cpp -o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCDFData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCDFData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/CDFFileData.h:37,
from fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/CDFFileData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCELData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCELData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.cpp -o fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp -o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.h:27,
from fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.h:27,
from fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.cpp -o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.h:25,
from fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.h:25,
from fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.cpp -o fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/parameter/src/ParameterException.h:24,
from fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.h:27,
from fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.cpp:24:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CDFFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CDFFileReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/parsers/src/CDFFileReader.h:29,
from fusion_sdk/calvin_files/parsers/src/CDFFileReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/parsers/src/CDFFileReader.h:29,
from fusion_sdk/calvin_files/parsers/src/CDFFileReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CelFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CelFileReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/parsers/src/CelFileReader.h:27,
from fusion_sdk/calvin_files/parsers/src/CelFileReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/parsers/src/CelFileReader.h:27,
from fusion_sdk/calvin_files/parsers/src/CelFileReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPFileReader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.cpp -o fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.h:27,
from fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.h:27,
from fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/DataGroupReader.cpp -o fusion_sdk/calvin_files/parsers/src/DataGroupReader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.cpp -o fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.h:27,
from fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.h:27,
from fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/DataSetReader.cpp -o fusion_sdk/calvin_files/parsers/src/DataSetReader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/FileHeaderReader.cpp -o fusion_sdk/calvin_files/parsers/src/FileHeaderReader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/FileInput.cpp -o fusion_sdk/calvin_files/parsers/src/FileInput.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/parsers/src/FileInput.h:27,
from fusion_sdk/calvin_files/parsers/src/FileInput.cpp:24:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/parsers/src/FileInput.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.cpp -o fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/GenericFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/GenericFileReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/parsers/src/GenericFileReader.h:27,
from fusion_sdk/calvin_files/parsers/src/GenericFileReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/parsers/src/GenericFileReader.h:27,
from fusion_sdk/calvin_files/parsers/src/GenericFileReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/AffymetrixGuid.cpp -o fusion_sdk/calvin_files/utils/src/AffymetrixGuid.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/utils/src/checksum.h:27,
from fusion_sdk/calvin_files/utils/src/AffymetrixGuid.cpp:26:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/utils/src/AffymetrixGuid.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/DateTime.cpp -o fusion_sdk/calvin_files/utils/src/DateTime.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/FileUtils.cpp -o fusion_sdk/calvin_files/utils/src/FileUtils.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Fs.h:27,
from fusion_sdk/calvin_files/utils/src/FileUtils.cpp:26:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/utils/src/FileUtils.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/StringUtils.cpp -o fusion_sdk/calvin_files/utils/src/StringUtils.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/checksum.cpp -o fusion_sdk/calvin_files/utils/src/checksum.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/BPMAPFileData.cpp -o fusion_sdk/file/BPMAPFileData.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/FileIO.h:27,
from fusion_sdk/file/BPMAPFileData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/BPMAPFileData.h:30,
from fusion_sdk/file/BPMAPFileData.cpp:20:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/BPMAPFileWriter.cpp -o fusion_sdk/file/BPMAPFileWriter.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/FileIO.h:27,
from fusion_sdk/file/BPMAPFileWriter.cpp:22:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/BPMAPFileData.h:30,
from fusion_sdk/file/BPMAPFileWriter.h:26,
from fusion_sdk/file/BPMAPFileWriter.cpp:20:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/CDFFileData.cpp -o fusion_sdk/file/CDFFileData.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/CDFFileData.h:37,
from fusion_sdk/file/CDFFileData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/CDFFileData.h:31,
from fusion_sdk/file/CDFFileData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
fusion_sdk/file/CDFFileData.cpp: In member function 'bool affxcdf::CCDFFileData::ReadTextFormat()':
fusion_sdk/file/CDFFileData.cpp:858:10: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
else if ( strncmp( subStr, CDFVERSION6, strlen(CDFVERSION6)) == 0)
^~
fusion_sdk/file/CDFFileData.cpp:861:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
if (m_Header.m_Version >= 6)
^~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/CELFileData.cpp -o fusion_sdk/file/CELFileData.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/CHPFileData.cpp -o fusion_sdk/file/CHPFileData.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/CHPFileData.h:36,
from fusion_sdk/file/CHPFileData.cpp:20:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw32/i686-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw32/include/c++/8.3.0/cstring:42,
from fusion_sdk/file/TagValuePair.h:27,
from fusion_sdk/file/CHPFileData.h:34,
from fusion_sdk/file/CHPFileData.cpp:20:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/FileIO.cpp -o fusion_sdk/file/FileIO.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/FileIO.h:27,
from fusion_sdk/file/FileIO.cpp:26:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/FileIO.cpp:23:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/FileWriter.cpp -o fusion_sdk/file/FileWriter.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/FileIO.h:27,
from fusion_sdk/file/FileWriter.h:26,
from fusion_sdk/file/FileWriter.cpp:25:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/FileWriter.cpp:22:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/TsvFile/ClfFile.cpp -o fusion_sdk/file/TsvFile/ClfFile.o
In file included from fusion_sdk/file/TsvFile/ClfFile.h:31,
from fusion_sdk/file/TsvFile/ClfFile.cpp:27:
fusion_sdk/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion_sdk/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
(that); /* unused var */
~^~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/TsvFile/PgfFile.cpp -o fusion_sdk/file/TsvFile/PgfFile.o
In file included from fusion_sdk/file/TsvFile/PgfFile.h:32,
from fusion_sdk/file/TsvFile/PgfFile.cpp:274:
fusion_sdk/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion_sdk/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
(that); /* unused var */
~^~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/TsvFile/TsvFile.cpp -o fusion_sdk/file/TsvFile/TsvFile.o
In file included from fusion_sdk/file/TsvFile/TsvFile.cpp:24:
fusion_sdk/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion_sdk/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
(that); /* unused var */
~^~~~~
fusion_sdk/file/TsvFile/TsvFile.cpp: In static member function 'static int affx::TsvFile::getLineCountInFile(const string&, bool)':
fusion_sdk/file/TsvFile/TsvFile.cpp:4921:20: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
catch (exception e) {
^
fusion_sdk/file/TsvFile/TsvFile.cpp: In static member function 'static int affx::TsvFile::replaceCharInFile(const string&, char, char, bool)':
fusion_sdk/file/TsvFile/TsvFile.cpp:4970:20: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
catch (exception e) {
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/AffxByteArray.cpp -o fusion_sdk/util/AffxByteArray.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Convert.h:32,
from fusion_sdk/util/Err.h:34,
from fusion_sdk/util/AffxString.h:29,
from fusion_sdk/util/AffxByteArray.h:29,
from fusion_sdk/util/AffxByteArray.cpp:27:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw32/i686-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw32/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/AffxConv.h:33,
from fusion_sdk/util/AffxByteArray.h:28,
from fusion_sdk/util/AffxByteArray.cpp:27:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
fusion_sdk/util/AffxByteArray.cpp: In member function 'const AffxByteArray& AffxByteArray::operator=(const AffxByteArray&)':
fusion_sdk/util/AffxByteArray.cpp:320:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
if (this == &ba)
^~
fusion_sdk/util/AffxByteArray.cpp:323:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
empty();
^~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/AffxConv.cpp -o fusion_sdk/util/AffxConv.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Convert.h:32,
from fusion_sdk/util/AffxConv.cpp:34:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw32/i686-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw32/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/AffxConv.h:33,
from fusion_sdk/util/AffxConv.cpp:32:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
fusion_sdk/util/AffxConv.cpp: In function 'std::__cxx11::string getInt(int, bool)':
fusion_sdk/util/AffxConv.cpp:124:8: warning: self-comparison always evaluates to false [-Wtautological-compare]
if (i != i) {return "nan";}
~~^~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/MsgStream.cpp -o fusion_sdk/util/MsgStream.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Convert.h:32,
from fusion_sdk/util/Err.h:34,
from fusion_sdk/util/MsgStream.cpp:33:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw32/i686-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw32/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/MsgHandler.h:31,
from fusion_sdk/util/MsgStream.h:32,
from fusion_sdk/util/MsgStream.cpp:31:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Util.cpp -o fusion_sdk/util/Util.o
fusion_sdk/util/Util.cpp:220: warning: "S_IRWXG" redefined
#define S_IRWXG 00070 //mask for group permissions
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:158: note: this is the location of the previous definition
#define S_IRWXG (S_IRWXU >> 3)
fusion_sdk/util/Util.cpp:221: warning: "S_IRGRP" redefined
#define S_IRGRP 00040 //group has read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:155: note: this is the location of the previous definition
#define S_IRGRP (S_IRUSR >> 3)
fusion_sdk/util/Util.cpp:222: warning: "S_IWGRP" redefined
#define S_IWGRP 00020 //group has write permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:156: note: this is the location of the previous definition
#define S_IWGRP (S_IWUSR >> 3)
fusion_sdk/util/Util.cpp:223: warning: "S_IXGRP" redefined
#define S_IXGRP 00010 //group has execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:157: note: this is the location of the previous definition
#define S_IXGRP (S_IXUSR >> 3)
fusion_sdk/util/Util.cpp:224: warning: "S_IRWXO" redefined
#define S_IRWXO 00007 //mask for permissions for others (not in group)
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:163: note: this is the location of the previous definition
#define S_IRWXO (S_IRWXG >> 3)
fusion_sdk/util/Util.cpp:225: warning: "S_IROTH" redefined
#define S_IROTH 00004 //others have read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:160: note: this is the location of the previous definition
#define S_IROTH (S_IRGRP >> 3)
fusion_sdk/util/Util.cpp:226: warning: "S_IWOTH" redefined
#define S_IWOTH 00002 //others have write permisson
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:161: note: this is the location of the previous definition
#define S_IWOTH (S_IWGRP >> 3)
fusion_sdk/util/Util.cpp:227: warning: "S_IXOTH" redefined
#define S_IXOTH 00001 // others have execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:162: note: this is the location of the previous definition
#define S_IXOTH (S_IXGRP >> 3)
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Err.cpp -o fusion_sdk/util/Err.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Fs.cpp -o fusion_sdk/util/Fs.o
fusion_sdk/util/Fs.cpp:43: warning: "S_IRUSR" redefined
#define S_IRUSR 00400 //owner has read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:152: note: this is the location of the previous definition
#define S_IRUSR _S_IRUSR
fusion_sdk/util/Fs.cpp:44: warning: "S_IWUSR" redefined
#define S_IWUSR 00200 //owner has write permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:151: note: this is the location of the previous definition
#define S_IWUSR _S_IWUSR
fusion_sdk/util/Fs.cpp:45: warning: "S_IXUSR" redefined
#define S_IXUSR 00100 ///owner has execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:150: note: this is the location of the previous definition
#define S_IXUSR _S_IXUSR
fusion_sdk/util/Fs.cpp:46: warning: "S_IRWXG" redefined
#define S_IRWXG 00070 //mask for group permissions
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:158: note: this is the location of the previous definition
#define S_IRWXG (S_IRWXU >> 3)
fusion_sdk/util/Fs.cpp:47: warning: "S_IRGRP" redefined
#define S_IRGRP 00040 //group has read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:155: note: this is the location of the previous definition
#define S_IRGRP (S_IRUSR >> 3)
fusion_sdk/util/Fs.cpp:48: warning: "S_IWGRP" redefined
#define S_IWGRP 00020 //group has write permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:156: note: this is the location of the previous definition
#define S_IWGRP (S_IWUSR >> 3)
fusion_sdk/util/Fs.cpp:49: warning: "S_IXGRP" redefined
#define S_IXGRP 00010 //group has execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:157: note: this is the location of the previous definition
#define S_IXGRP (S_IXUSR >> 3)
fusion_sdk/util/Fs.cpp:50: warning: "S_IRWXO" redefined
#define S_IRWXO 00007 //mask for permissions for others (not in group)
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:163: note: this is the location of the previous definition
#define S_IRWXO (S_IRWXG >> 3)
fusion_sdk/util/Fs.cpp:51: warning: "S_IROTH" redefined
#define S_IROTH 00004 //others have read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:160: note: this is the location of the previous definition
#define S_IROTH (S_IRGRP >> 3)
fusion_sdk/util/Fs.cpp:52: warning: "S_IWOTH" redefined
#define S_IWOTH 00002 //others have write permisson
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:161: note: this is the location of the previous definition
#define S_IWOTH (S_IWGRP >> 3)
fusion_sdk/util/Fs.cpp:53: warning: "S_IXOTH" redefined
#define S_IXOTH 00001 // others have execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw32/i686-w64-mingw32/include/sys/stat.h:162: note: this is the location of the previous definition
#define S_IXOTH (S_IXGRP >> 3)
fusion_sdk/util/Fs.cpp: In static member function 'static AptErr_t Fs::listDir(const string&, std::vector<std::__cxx11::basic_string<char> >&, bool)':
fusion_sdk/util/Fs.cpp:1028:9: warning: unused variable 'rv' [-Wunused-variable]
DWORD rv=0;
^~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Verbose.cpp -o fusion_sdk/util/Verbose.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Fs.h:27,
from fusion_sdk/util/Verbose.cpp:31:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw32/i686-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw32/include/c++/8.3.0/cstring:42,
from fusion_sdk/calvin_files/utils/src/StringUtils.h:27,
from fusion_sdk/util/Verbose.cpp:29:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/RowFile.cpp -o fusion_sdk/util/RowFile.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Convert.h:32,
from fusion_sdk/util/RowFile.cpp:30:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw32/i686-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw32/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/RowFile.h:31,
from fusion_sdk/util/RowFile.cpp:28:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/TableFile.cpp -o fusion_sdk/util/TableFile.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Util.h:35,
from fusion_sdk/util/TableFile.h:32,
from fusion_sdk/util/TableFile.cpp:28:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw32/i686-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw32/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/RowFile.h:31,
from fusion_sdk/util/TableFile.h:31,
from fusion_sdk/util/TableFile.cpp:28:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Convert.cpp -o fusion_sdk/util/Convert.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_cel_parser.cpp -o R_affx_cel_parser.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from R_affx_cel_parser.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from R_affx_cel_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R.h:91,
from R_affx_cel_parser.cpp:9:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:71,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from R_affx_cel_parser.cpp:1:
C:/rtools40/mingw32/i686-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_cdf_parser.cpp -o R_affx_cdf_parser.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_parser.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R.h:91,
from R_affx_cdf_parser.cpp:9:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:71,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_parser.cpp:1:
C:/rtools40/mingw32/i686-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_cdf_extras.cpp -o R_affx_cdf_extras.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_extras.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_extras.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R.h:91,
from R_affx_cdf_extras.cpp:8:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:71,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_extras.cpp:1:
C:/rtools40/mingw32/i686-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_bpmap_parser.cpp -o R_affx_bpmap_parser.o
In file included from R_affx_bpmap_parser.cpp:4:
R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/BPMAPFileData.h:30,
from R_affx_bpmap_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R.h:91,
from R_affx_bpmap_parser.cpp:11:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:71,
from fusion_sdk/file/BPMAPFileData.h:30,
from R_affx_bpmap_parser.cpp:1:
C:/rtools40/mingw32/i686-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
R_affx_bpmap_parser.cpp: In function 'SEXPREC* R_affx_get_bpmap_file(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
R_affx_bpmap_parser.cpp:482:32: warning: 'centerpos' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(centerpos)[j] = seqHit.getCenterPosition();
~~~~~~~^~~~~~~~~~~
R_affx_bpmap_parser.cpp:479:36: warning: 'startpos' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(startpos)[j] = seqHit.getStartPosition();
~~~~~~~^~~~~~~~~~
R_affx_bpmap_parser.cpp:485:33: warning: 'matchscore' may be used uninitialized in this function [-Wmaybe-uninitialized]
REAL(matchscore)[j] = (double)seqHit.MatchScore;
~~~~^~~~~~~~~~~~
R_affx_bpmap_parser.cpp:488:32: warning: 'probelength' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(probelength)[j] = (int)seqHit.ProbeLength;
~~~~~~~^~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:467:32: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(strand)[j] = (unsigned int)seqHit.TopStrand;
~~~~~~~^~~~~~~~
R_affx_bpmap_parser.cpp:475:41: warning: 'probeseq' may be used uninitialized in this function [-Wmaybe-uninitialized]
SET_STRING_ELT(probeseq, j, mkChar(cstr));
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:502:39: warning: 'mmy' may be used uninitialized in this function [-Wmaybe-uninitialized]
SET_VECTOR_ELT(seqObj, kk, mmy);
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:463:32: warning: 'mmx' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(mmx)[j] = seqHit.MMX;
~~~~~~~^~~~~
R_affx_bpmap_parser.cpp:495:35: warning: 'pmy' may be used uninitialized in this function [-Wmaybe-uninitialized]
SET_VECTOR_ELT(seqObj, kk, pmy);
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:493:35: warning: 'pmx' may be used uninitialized in this function [-Wmaybe-uninitialized]
SET_VECTOR_ELT(seqObj, kk, pmx);
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_clf_pgf_parser.cpp -o R_affx_clf_pgf_parser.o
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:39,
from R_affx_clf_pgf_parser.cpp:11:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:71,
from fusion_sdk/portability/affy-base-types.h:56,
from fusion_sdk/file/TsvFile/TsvFile.h:30,
from fusion_sdk/file/TsvFile/ClfFile.h:31,
from R_affx_clf_pgf_parser.cpp:2:
C:/rtools40/mingw32/i686-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
In file included from fusion_sdk/file/TsvFile/ClfFile.h:31,
from R_affx_clf_pgf_parser.cpp:2:
fusion_sdk/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion_sdk/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
(that); /* unused var */
~^~~~~
R_affx_clf_pgf_parser.cpp: In function 'SEXPREC* R_affx_get_clf_file(SEXP, SEXP, SEXP)':
R_affx_clf_pgf_parser.cpp:284:21: warning: catching polymorphic type 'class Except' by value [-Wcatch-value=]
} catch (Except ex) {
^~
R_affx_clf_pgf_parser.cpp: In function 'SEXPREC* R_affx_get_pgf_file(SEXP, SEXP, SEXP, SEXP)':
R_affx_clf_pgf_parser.cpp:327:21: warning: catching polymorphic type 'class Except' by value [-Wcatch-value=]
} catch (Except ex) {
^~
R_affx_clf_pgf_parser.cpp: In function 'void R_affx_get_body(affx::PgfFile*, SEXP, SEXP)':
R_affx_clf_pgf_parser.cpp:161:23: warning: 'pindices' may be used uninitialized in this function [-Wmaybe-uninitialized]
currIndex = pindices[i];
~~~~~~~~~~^~~~~~~~~~~~~
R_affx_clf_pgf_parser.cpp:132:4: warning: 'currIndex' may be used uninitialized in this function [-Wmaybe-uninitialized]
if (nProbesets < currIndex) continue;
^~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_chp_parser.cpp -o R_affx_chp_parser.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from R_affx_chp_parser.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from R_affx_chp_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:39,
from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw32/i686-w64-mingw32/include/windows.h:71,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from R_affx_chp_parser.cpp:1:
C:/rtools40/mingw32/i686-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h: In function 'SEXPREC* R_affx_GetCHPGenotypingResults(affymetrix_fusion_io::FusionCHPLegacyData*)':
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'nocall' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:38: note: 'nocall' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~~~~~
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'bb' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:34: note: 'bb' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'ab' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:30: note: 'ab' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'aa' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:26: note: 'aa' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'ras1' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:14: note: 'ras1' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~~~
R_affx_chp_parser.cpp:360:11: warning: 'ras2' may be used uninitialized in this function [-Wmaybe-uninitialized]
REAL(ras2)[i] = f.GetRAS2();
~~~~^~~~~~
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o affxparser.dll tmp.def fusion_sdk/calvin_files/data/src/CDFData.o fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.o fusion_sdk/calvin_files/data/src/CDFProbeInformation.o fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.o fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.o fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.o fusion_sdk/calvin_files/data/src/CELData.o fusion_sdk/calvin_files/data/src/CHPBackgroundZone.o fusion_sdk/calvin_files/data/src/CHPData.o fusion_sdk/calvin_files/data/src/CHPExpressionEntry.o fusion_sdk/calvin_files/data/src/CHPMultiDataData.o fusion_sdk/calvin_files/data/src/CHPTilingData.o fusion_sdk/calvin_files/data/src/CHPQuantificationData.o fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.o fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.o fusion_sdk/calvin_files/data/src/CHPUniversalEntry.o fusion_sdk/calvin_files/data/src/ColumnInfo.o fusion_sdk/calvin_files/data/src/DataGroup.o fusion_sdk/calvin_files/data/src/DataGroupHeader.o fusion_sdk/calvin_files/data/src/DataSet.o fusion_sdk/calvin_files/data/src/DataSetHeader.o fusion_sdk/calvin_files/data/src/FileHeader.o fusion_sdk/calvin_files/data/src/GenericData.o fusion_sdk/calvin_files/data/src/GenericDataHeader.o fusion_sdk/calvin_files/exception/src/ExceptionBase.o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.o fusion_sdk/calvin_files/fusion/src/FusionCDFData.o fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o fusion_sdk/calvin_files/fusion/src/FusionCELData.o fusion_sdk/calvin_files/fusion/src/FusionCHPData.o fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.o fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.o fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.o fusion_sdk/calvin_files/parsers/src/CDFFileReader.o fusion_sdk/calvin_files/parsers/src/CelFileReader.o fusion_sdk/calvin_files/parsers/src/CHPFileReader.o fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.o fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.o fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.o fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.o fusion_sdk/calvin_files/parsers/src/DataGroupReader.o fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.o fusion_sdk/calvin_files/parsers/src/DataSetReader.o fusion_sdk/calvin_files/parsers/src/FileHeaderReader.o fusion_sdk/calvin_files/parsers/src/FileInput.o fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.o fusion_sdk/calvin_files/parsers/src/GenericFileReader.o fusion_sdk/calvin_files/utils/src/AffymetrixGuid.o fusion_sdk/calvin_files/utils/src/DateTime.o fusion_sdk/calvin_files/utils/src/FileUtils.o fusion_sdk/calvin_files/utils/src/StringUtils.o fusion_sdk/calvin_files/utils/src/checksum.o fusion_sdk/file/BPMAPFileData.o fusion_sdk/file/BPMAPFileWriter.o fusion_sdk/file/CDFFileData.o fusion_sdk/file/CELFileData.o fusion_sdk/file/CHPFileData.o fusion_sdk/file/FileIO.o fusion_sdk/file/FileWriter.o fusion_sdk/file/TsvFile/ClfFile.o fusion_sdk/file/TsvFile/PgfFile.o fusion_sdk/file/TsvFile/TsvFile.o fusion_sdk/util/AffxByteArray.o fusion_sdk/util/AffxConv.o fusion_sdk/util/MsgStream.o fusion_sdk/util/Util.o fusion_sdk/util/Err.o fusion_sdk/util/Fs.o fusion_sdk/util/Verbose.o fusion_sdk/util/RowFile.o fusion_sdk/util/TableFile.o fusion_sdk/util/Convert.o R_affx_cel_parser.o R_affx_cdf_parser.o R_affx_cdf_extras.o R_affx_bpmap_parser.o R_affx_clf_pgf_parser.o R_affx_chp_parser.o -lws2_32 -Lc:/extsoft/lib/i386 -Lc:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/affxparser.buildbin-libdir/00LOCK-affxparser/00new/affxparser/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'affxparser'
finding HTML links ... done
1._Dictionary html
2._Cell_coordinates_and_cell_indices html
9._Advanced_-_Cell-index_maps_for_reading_and_writing
html
affxparser-package html
applyCdfGroupFields html
applyCdfGroups html
arrangeCelFilesByChipType html
cdfAddBaseMmCounts html
cdfAddPlasqTypes html
cdfAddProbeOffsets html
cdfGetFields html
cdfGetGroups html
cdfGtypeCelToPQ html
cdfHeaderToCelHeader html
cdfMergeAlleles html
cdfMergeStrands html
cdfMergeToQuartets html
cdfOrderBy html
cdfOrderColumnsBy html
cdfSetDimension html
compareCdfs html
compareCels html
convertCdf html
convertCel html
copyCel html
createCel html
findCdf html
findFiles html
invertMap html
isCelFile html
parseDatHeaderString html
readBpmap html
readCcg html
readCcgHeader html
readCdf html
readCdfCellIndices html
readCdfDataFrame html
readCdfGroupNames html
readCdfHeader html
readCdfIsPm html
readCdfNbrOfCellsPerUnitGroup html
readCdfQc html
readCdfUnitNames html
readCdfUnits html
readCdfUnitsWriteMap html
readCel html
readCelHeader html
readCelIntensities html
readCelRectangle html
readCelUnits html
readChp html
readClf html
readClfEnv html
readClfHeader html
readPgf html
readPgfEnv html
readPgfHeader html
updateCel html
updateCelUnits html
writeCdf html
writeCdfHeader html
writeCdfQcUnits html
writeCdfUnits html
writeCelHeader html
writeTpmap html
** building package indices
** 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 'affxparser' ...
** libs
rm -f fusion_sdk/calvin_files/data/src/CDFData.o fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.o fusion_sdk/calvin_files/data/src/CDFProbeInformation.o fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.o fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.o fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.o fusion_sdk/calvin_files/data/src/CELData.o fusion_sdk/calvin_files/data/src/CHPBackgroundZone.o fusion_sdk/calvin_files/data/src/CHPData.o fusion_sdk/calvin_files/data/src/CHPExpressionEntry.o fusion_sdk/calvin_files/data/src/CHPMultiDataData.o fusion_sdk/calvin_files/data/src/CHPTilingData.o fusion_sdk/calvin_files/data/src/CHPQuantificationData.o fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.o fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.o fusion_sdk/calvin_files/data/src/CHPUniversalEntry.o fusion_sdk/calvin_files/data/src/ColumnInfo.o fusion_sdk/calvin_files/data/src/DataGroup.o fusion_sdk/calvin_files/data/src/DataGroupHeader.o fusion_sdk/calvin_files/data/src/DataSet.o fusion_sdk/calvin_files/data/src/DataSetHeader.o fusion_sdk/calvin_files/data/src/FileHeader.o fusion_sdk/calvin_files/data/src/GenericData.o fusion_sdk/calvin_files/data/src/GenericDataHeader.o fusion_sdk/calvin_files/exception/src/ExceptionBase.o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.o fusion_sdk/calvin_files/fusion/src/FusionCDFData.o fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o fusion_sdk/calvin_files/fusion/src/FusionCELData.o fusion_sdk/calvin_files/fusion/src/FusionCHPData.o fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.o fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.o fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.o fusion_sdk/calvin_files/parsers/src/CDFFileReader.o fusion_sdk/calvin_files/parsers/src/CelFileReader.o fusion_sdk/calvin_files/parsers/src/CHPFileReader.o fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.o fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.o fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.o fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.o fusion_sdk/calvin_files/parsers/src/DataGroupReader.o fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.o fusion_sdk/calvin_files/parsers/src/DataSetReader.o fusion_sdk/calvin_files/parsers/src/FileHeaderReader.o fusion_sdk/calvin_files/parsers/src/FileInput.o fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.o fusion_sdk/calvin_files/parsers/src/GenericFileReader.o fusion_sdk/calvin_files/utils/src/AffymetrixGuid.o fusion_sdk/calvin_files/utils/src/DateTime.o fusion_sdk/calvin_files/utils/src/FileUtils.o fusion_sdk/calvin_files/utils/src/StringUtils.o fusion_sdk/calvin_files/utils/src/checksum.o fusion_sdk/file/BPMAPFileData.o fusion_sdk/file/BPMAPFileWriter.o fusion_sdk/file/CDFFileData.o fusion_sdk/file/CELFileData.o fusion_sdk/file/CHPFileData.o fusion_sdk/file/FileIO.o fusion_sdk/file/FileWriter.o fusion_sdk/file/TsvFile/ClfFile.o fusion_sdk/file/TsvFile/PgfFile.o fusion_sdk/file/TsvFile/TsvFile.o fusion_sdk/util/AffxByteArray.o fusion_sdk/util/AffxConv.o fusion_sdk/util/MsgStream.o fusion_sdk/util/Util.o fusion_sdk/util/Err.o fusion_sdk/util/Fs.o fusion_sdk/util/Verbose.o fusion_sdk/util/RowFile.o fusion_sdk/util/TableFile.o fusion_sdk/util/Convert.o R_affx_cel_parser.o R_affx_cdf_parser.o R_affx_cdf_extras.o R_affx_bpmap_parser.o R_affx_clf_pgf_parser.o R_affx_chp_parser.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFData.cpp -o fusion_sdk/calvin_files/data/src/CDFData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/data/src/CDFData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/data/src/CDFData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFProbeInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFProbeInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataSet.h:28,
from fusion_sdk/calvin_files/data/src/CDFProbeInformation.h:30,
from fusion_sdk/calvin_files/data/src/CDFProbeInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeInformation.h:27,
from fusion_sdk/calvin_files/data/src/CDFProbeInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataSet.h:28,
from fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.h:27,
from fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/DataSet.h:25,
from fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.h:27,
from fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.cpp -o fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataSet.h:28,
from fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.h:31,
from fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.h:25,
from fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CELData.cpp -o fusion_sdk/calvin_files/data/src/CELData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/data/src/CELData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/data/src/CELData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPBackgroundZone.cpp -o fusion_sdk/calvin_files/data/src/CHPBackgroundZone.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPData.cpp -o fusion_sdk/calvin_files/data/src/CHPData.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPExpressionEntry.cpp -o fusion_sdk/calvin_files/data/src/CHPExpressionEntry.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp -o fusion_sdk/calvin_files/data/src/CHPMultiDataData.o
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp: In member function 'void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int32_t, const std::vector<affymetrix_calvin_io::ColumnInfo>&, const wstring&)':
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:427:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:429:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
^~~~~~~~~~~~~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp: In member function 'void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int, int, int, const wstring&)':
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:457:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:459:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
^~~~~~~~~~~~~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp: In member function 'void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int, int, int, int, const wstring&)':
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:482:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp:484:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
^~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPTilingData.cpp -o fusion_sdk/calvin_files/data/src/CHPTilingData.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPQuantificationData.cpp -o fusion_sdk/calvin_files/data/src/CHPQuantificationData.o
fusion_sdk/calvin_files/data/src/CHPQuantificationData.cpp: In member function 'void affymetrix_calvin_io::CHPQuantificationData::AddColumns(affymetrix_calvin_io::DataSetHeader&, bool)':
fusion_sdk/calvin_files/data/src/CHPQuantificationData.cpp:144:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPQuantificationData.cpp:146:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
hdr.AddFloatColumn(QUANTIFICATION_QUANTIFICATION_NAME);
^~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.cpp -o fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.o
fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.cpp: In member function 'void affymetrix_calvin_io::CHPQuantificationDetectionData::AddColumns(affymetrix_calvin_io::DataSetHeader&, bool)':
fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.cpp:151:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
else
^~~~
fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.cpp:153:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
hdr.AddFloatColumn(QUANTIFICATION_DETECTION_QUANTIFICATION_NAME);
^~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.cpp -o fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/CHPUniversalEntry.cpp -o fusion_sdk/calvin_files/data/src/CHPUniversalEntry.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/ColumnInfo.cpp -o fusion_sdk/calvin_files/data/src/ColumnInfo.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/DataGroup.cpp -o fusion_sdk/calvin_files/data/src/DataGroup.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/DataGroup.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/DataGroup.h:28,
from fusion_sdk/calvin_files/data/src/DataGroup.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/DataGroupHeader.cpp -o fusion_sdk/calvin_files/data/src/DataGroupHeader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/DataSet.cpp -o fusion_sdk/calvin_files/data/src/DataSet.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataSet.h:28,
from fusion_sdk/calvin_files/data/src/DataSet.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/DataSet.h:25,
from fusion_sdk/calvin_files/data/src/DataSet.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/DataSetHeader.cpp -o fusion_sdk/calvin_files/data/src/DataSetHeader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/FileHeader.cpp -o fusion_sdk/calvin_files/data/src/FileHeader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/GenericData.cpp -o fusion_sdk/calvin_files/data/src/GenericData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/data/src/GenericData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/data/src/GenericData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/data/src/GenericDataHeader.cpp -o fusion_sdk/calvin_files/data/src/GenericDataHeader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/exception/src/ExceptionBase.cpp -o fusion_sdk/calvin_files/exception/src/ExceptionBase.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp -o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.h:27,
from fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp:22:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.h:27,
from fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp:22:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.cpp -o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCDFData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCDFData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/CDFFileData.h:37,
from fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/CDFFileData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCELData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCELData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.cpp -o fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp -o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.h:27,
from fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.h:27,
from fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.cpp -o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.h:25,
from fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.h:25,
from fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.cpp -o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.cpp -o fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/parameter/src/ParameterException.h:24,
from fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.h:27,
from fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.cpp:24:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CDFFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CDFFileReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/parsers/src/CDFFileReader.h:29,
from fusion_sdk/calvin_files/parsers/src/CDFFileReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/parsers/src/CDFFileReader.h:29,
from fusion_sdk/calvin_files/parsers/src/CDFFileReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CelFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CelFileReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/parsers/src/CelFileReader.h:27,
from fusion_sdk/calvin_files/parsers/src/CelFileReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/data/src/CELData.h:26,
from fusion_sdk/calvin_files/parsers/src/CelFileReader.h:27,
from fusion_sdk/calvin_files/parsers/src/CelFileReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPFileReader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.cpp -o fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.h:27,
from fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.h:27,
from fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/DataGroupReader.cpp -o fusion_sdk/calvin_files/parsers/src/DataGroupReader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.cpp -o fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.h:27,
from fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.h:27,
from fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/DataSetReader.cpp -o fusion_sdk/calvin_files/parsers/src/DataSetReader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/FileHeaderReader.cpp -o fusion_sdk/calvin_files/parsers/src/FileHeaderReader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/FileInput.cpp -o fusion_sdk/calvin_files/parsers/src/FileInput.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/parsers/src/FileInput.h:27,
from fusion_sdk/calvin_files/parsers/src/FileInput.cpp:24:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/parsers/src/FileInput.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.cpp -o fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/parsers/src/GenericFileReader.cpp -o fusion_sdk/calvin_files/parsers/src/GenericFileReader.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/parsers/src/GenericFileReader.h:27,
from fusion_sdk/calvin_files/parsers/src/GenericFileReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/parsers/src/GenericFileReader.h:27,
from fusion_sdk/calvin_files/parsers/src/GenericFileReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/AffymetrixGuid.cpp -o fusion_sdk/calvin_files/utils/src/AffymetrixGuid.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/utils/src/checksum.h:27,
from fusion_sdk/calvin_files/utils/src/AffymetrixGuid.cpp:26:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/utils/src/AffymetrixGuid.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/DateTime.cpp -o fusion_sdk/calvin_files/utils/src/DateTime.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/FileUtils.cpp -o fusion_sdk/calvin_files/utils/src/FileUtils.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Fs.h:27,
from fusion_sdk/calvin_files/utils/src/FileUtils.cpp:26:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/utils/src/FileUtils.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/StringUtils.cpp -o fusion_sdk/calvin_files/utils/src/StringUtils.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/calvin_files/utils/src/checksum.cpp -o fusion_sdk/calvin_files/utils/src/checksum.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/BPMAPFileData.cpp -o fusion_sdk/file/BPMAPFileData.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/FileIO.h:27,
from fusion_sdk/file/BPMAPFileData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/BPMAPFileData.h:30,
from fusion_sdk/file/BPMAPFileData.cpp:20:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/BPMAPFileWriter.cpp -o fusion_sdk/file/BPMAPFileWriter.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/FileIO.h:27,
from fusion_sdk/file/BPMAPFileWriter.cpp:22:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/BPMAPFileData.h:30,
from fusion_sdk/file/BPMAPFileWriter.h:26,
from fusion_sdk/file/BPMAPFileWriter.cpp:20:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/CDFFileData.cpp -o fusion_sdk/file/CDFFileData.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/CDFFileData.h:37,
from fusion_sdk/file/CDFFileData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/CDFFileData.h:31,
from fusion_sdk/file/CDFFileData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
fusion_sdk/file/CDFFileData.cpp: In member function 'bool affxcdf::CCDFFileData::ReadTextFormat()':
fusion_sdk/file/CDFFileData.cpp:858:10: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
else if ( strncmp( subStr, CDFVERSION6, strlen(CDFVERSION6)) == 0)
^~
fusion_sdk/file/CDFFileData.cpp:861:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
if (m_Header.m_Version >= 6)
^~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/CELFileData.cpp -o fusion_sdk/file/CELFileData.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/CHPFileData.cpp -o fusion_sdk/file/CHPFileData.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/CHPFileData.h:36,
from fusion_sdk/file/CHPFileData.cpp:20:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
from fusion_sdk/file/TagValuePair.h:27,
from fusion_sdk/file/CHPFileData.h:34,
from fusion_sdk/file/CHPFileData.cpp:20:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/FileIO.cpp -o fusion_sdk/file/FileIO.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/FileIO.h:27,
from fusion_sdk/file/FileIO.cpp:26:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/FileIO.cpp:23:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/FileWriter.cpp -o fusion_sdk/file/FileWriter.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/file/FileIO.h:27,
from fusion_sdk/file/FileWriter.h:26,
from fusion_sdk/file/FileWriter.cpp:25:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/FileWriter.cpp:22:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/TsvFile/ClfFile.cpp -o fusion_sdk/file/TsvFile/ClfFile.o
In file included from fusion_sdk/file/TsvFile/ClfFile.h:31,
from fusion_sdk/file/TsvFile/ClfFile.cpp:27:
fusion_sdk/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion_sdk/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
(that); /* unused var */
~^~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/TsvFile/PgfFile.cpp -o fusion_sdk/file/TsvFile/PgfFile.o
In file included from fusion_sdk/file/TsvFile/PgfFile.h:32,
from fusion_sdk/file/TsvFile/PgfFile.cpp:274:
fusion_sdk/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion_sdk/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
(that); /* unused var */
~^~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/file/TsvFile/TsvFile.cpp -o fusion_sdk/file/TsvFile/TsvFile.o
In file included from fusion_sdk/file/TsvFile/TsvFile.cpp:24:
fusion_sdk/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion_sdk/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
(that); /* unused var */
~^~~~~
fusion_sdk/file/TsvFile/TsvFile.cpp: In static member function 'static int affx::TsvFile::getLineCountInFile(const string&, bool)':
fusion_sdk/file/TsvFile/TsvFile.cpp:4921:20: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
catch (exception e) {
^
fusion_sdk/file/TsvFile/TsvFile.cpp: In static member function 'static int affx::TsvFile::replaceCharInFile(const string&, char, char, bool)':
fusion_sdk/file/TsvFile/TsvFile.cpp:4970:20: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
catch (exception e) {
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/AffxByteArray.cpp -o fusion_sdk/util/AffxByteArray.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Convert.h:32,
from fusion_sdk/util/Err.h:34,
from fusion_sdk/util/AffxString.h:29,
from fusion_sdk/util/AffxByteArray.h:29,
from fusion_sdk/util/AffxByteArray.cpp:27:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/AffxConv.h:33,
from fusion_sdk/util/AffxByteArray.h:28,
from fusion_sdk/util/AffxByteArray.cpp:27:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
fusion_sdk/util/AffxByteArray.cpp: In member function 'const AffxByteArray& AffxByteArray::operator=(const AffxByteArray&)':
fusion_sdk/util/AffxByteArray.cpp:320:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
if (this == &ba)
^~
fusion_sdk/util/AffxByteArray.cpp:323:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
empty();
^~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/AffxConv.cpp -o fusion_sdk/util/AffxConv.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Convert.h:32,
from fusion_sdk/util/AffxConv.cpp:34:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/AffxConv.h:33,
from fusion_sdk/util/AffxConv.cpp:32:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
fusion_sdk/util/AffxConv.cpp: In function 'std::__cxx11::string getInt(int, bool)':
fusion_sdk/util/AffxConv.cpp:124:8: warning: self-comparison always evaluates to false [-Wtautological-compare]
if (i != i) {return "nan";}
~~^~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/MsgStream.cpp -o fusion_sdk/util/MsgStream.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Convert.h:32,
from fusion_sdk/util/Err.h:34,
from fusion_sdk/util/MsgStream.cpp:33:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/MsgHandler.h:31,
from fusion_sdk/util/MsgStream.h:32,
from fusion_sdk/util/MsgStream.cpp:31:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Util.cpp -o fusion_sdk/util/Util.o
fusion_sdk/util/Util.cpp:220: warning: "S_IRWXG" redefined
#define S_IRWXG 00070 //mask for group permissions
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:158: note: this is the location of the previous definition
#define S_IRWXG (S_IRWXU >> 3)
fusion_sdk/util/Util.cpp:221: warning: "S_IRGRP" redefined
#define S_IRGRP 00040 //group has read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:155: note: this is the location of the previous definition
#define S_IRGRP (S_IRUSR >> 3)
fusion_sdk/util/Util.cpp:222: warning: "S_IWGRP" redefined
#define S_IWGRP 00020 //group has write permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:156: note: this is the location of the previous definition
#define S_IWGRP (S_IWUSR >> 3)
fusion_sdk/util/Util.cpp:223: warning: "S_IXGRP" redefined
#define S_IXGRP 00010 //group has execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:157: note: this is the location of the previous definition
#define S_IXGRP (S_IXUSR >> 3)
fusion_sdk/util/Util.cpp:224: warning: "S_IRWXO" redefined
#define S_IRWXO 00007 //mask for permissions for others (not in group)
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:163: note: this is the location of the previous definition
#define S_IRWXO (S_IRWXG >> 3)
fusion_sdk/util/Util.cpp:225: warning: "S_IROTH" redefined
#define S_IROTH 00004 //others have read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:160: note: this is the location of the previous definition
#define S_IROTH (S_IRGRP >> 3)
fusion_sdk/util/Util.cpp:226: warning: "S_IWOTH" redefined
#define S_IWOTH 00002 //others have write permisson
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:161: note: this is the location of the previous definition
#define S_IWOTH (S_IWGRP >> 3)
fusion_sdk/util/Util.cpp:227: warning: "S_IXOTH" redefined
#define S_IXOTH 00001 // others have execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:162: note: this is the location of the previous definition
#define S_IXOTH (S_IXGRP >> 3)
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Err.cpp -o fusion_sdk/util/Err.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Fs.cpp -o fusion_sdk/util/Fs.o
fusion_sdk/util/Fs.cpp:43: warning: "S_IRUSR" redefined
#define S_IRUSR 00400 //owner has read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:152: note: this is the location of the previous definition
#define S_IRUSR _S_IRUSR
fusion_sdk/util/Fs.cpp:44: warning: "S_IWUSR" redefined
#define S_IWUSR 00200 //owner has write permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:151: note: this is the location of the previous definition
#define S_IWUSR _S_IWUSR
fusion_sdk/util/Fs.cpp:45: warning: "S_IXUSR" redefined
#define S_IXUSR 00100 ///owner has execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:150: note: this is the location of the previous definition
#define S_IXUSR _S_IXUSR
fusion_sdk/util/Fs.cpp:46: warning: "S_IRWXG" redefined
#define S_IRWXG 00070 //mask for group permissions
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:158: note: this is the location of the previous definition
#define S_IRWXG (S_IRWXU >> 3)
fusion_sdk/util/Fs.cpp:47: warning: "S_IRGRP" redefined
#define S_IRGRP 00040 //group has read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:155: note: this is the location of the previous definition
#define S_IRGRP (S_IRUSR >> 3)
fusion_sdk/util/Fs.cpp:48: warning: "S_IWGRP" redefined
#define S_IWGRP 00020 //group has write permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:156: note: this is the location of the previous definition
#define S_IWGRP (S_IWUSR >> 3)
fusion_sdk/util/Fs.cpp:49: warning: "S_IXGRP" redefined
#define S_IXGRP 00010 //group has execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:157: note: this is the location of the previous definition
#define S_IXGRP (S_IXUSR >> 3)
fusion_sdk/util/Fs.cpp:50: warning: "S_IRWXO" redefined
#define S_IRWXO 00007 //mask for permissions for others (not in group)
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:163: note: this is the location of the previous definition
#define S_IRWXO (S_IRWXG >> 3)
fusion_sdk/util/Fs.cpp:51: warning: "S_IROTH" redefined
#define S_IROTH 00004 //others have read permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:160: note: this is the location of the previous definition
#define S_IROTH (S_IRGRP >> 3)
fusion_sdk/util/Fs.cpp:52: warning: "S_IWOTH" redefined
#define S_IWOTH 00002 //others have write permisson
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:161: note: this is the location of the previous definition
#define S_IWOTH (S_IWGRP >> 3)
fusion_sdk/util/Fs.cpp:53: warning: "S_IXOTH" redefined
#define S_IXOTH 00001 // others have execute permission
In file included from fusion_sdk/util/Fs.h:33,
from fusion_sdk/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:162: note: this is the location of the previous definition
#define S_IXOTH (S_IXGRP >> 3)
fusion_sdk/util/Fs.cpp: In static member function 'static AptErr_t Fs::listDir(const string&, std::vector<std::__cxx11::basic_string<char> >&, bool)':
fusion_sdk/util/Fs.cpp:1028:9: warning: unused variable 'rv' [-Wunused-variable]
DWORD rv=0;
^~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Verbose.cpp -o fusion_sdk/util/Verbose.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Fs.h:27,
from fusion_sdk/util/Verbose.cpp:31:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
from fusion_sdk/calvin_files/utils/src/StringUtils.h:27,
from fusion_sdk/util/Verbose.cpp:29:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/RowFile.cpp -o fusion_sdk/util/RowFile.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Convert.h:32,
from fusion_sdk/util/RowFile.cpp:30:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/RowFile.h:31,
from fusion_sdk/util/RowFile.cpp:28:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/TableFile.cpp -o fusion_sdk/util/TableFile.o
In file included from fusion_sdk/portability/affy-base-types.h:51,
from fusion_sdk/util/Util.h:35,
from fusion_sdk/util/TableFile.h:32,
from fusion_sdk/util/TableFile.cpp:28:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
from fusion_sdk/util/RowFile.h:31,
from fusion_sdk/util/TableFile.h:31,
from fusion_sdk/util/TableFile.cpp:28:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c fusion_sdk/util/Convert.cpp -o fusion_sdk/util/Convert.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_cel_parser.cpp -o R_affx_cel_parser.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from R_affx_cel_parser.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from R_affx_cel_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R.h:91,
from R_affx_cel_parser.cpp:9:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:71,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
from fusion_sdk/calvin_files/fusion/src/FusionCELData.h:27,
from R_affx_cel_parser.cpp:1:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_cdf_parser.cpp -o R_affx_cdf_parser.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_parser.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R.h:91,
from R_affx_cdf_parser.cpp:9:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:71,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_parser.cpp:1:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_cdf_extras.cpp -o R_affx_cdf_extras.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/DataGroup.h:31,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:32,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_extras.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_extras.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R.h:91,
from R_affx_cdf_extras.cpp:8:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:71,
from fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h:28,
from fusion_sdk/calvin_files/data/src/CDFData.h:26,
from fusion_sdk/calvin_files/fusion/src/FusionCDFData.h:27,
from R_affx_cdf_extras.cpp:1:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_bpmap_parser.cpp -o R_affx_bpmap_parser.o
In file included from R_affx_bpmap_parser.cpp:4:
R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/file/BPMAPFileData.h:30,
from R_affx_bpmap_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R.h:91,
from R_affx_bpmap_parser.cpp:11:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:71,
from fusion_sdk/file/BPMAPFileData.h:30,
from R_affx_bpmap_parser.cpp:1:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
R_affx_bpmap_parser.cpp: In function 'SEXPREC* R_affx_get_bpmap_file(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
R_affx_bpmap_parser.cpp:482:32: warning: 'centerpos' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(centerpos)[j] = seqHit.getCenterPosition();
~~~~~~~^~~~~~~~~~~
R_affx_bpmap_parser.cpp:479:36: warning: 'startpos' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(startpos)[j] = seqHit.getStartPosition();
~~~~~~~^~~~~~~~~~
R_affx_bpmap_parser.cpp:485:33: warning: 'matchscore' may be used uninitialized in this function [-Wmaybe-uninitialized]
REAL(matchscore)[j] = (double)seqHit.MatchScore;
~~~~^~~~~~~~~~~~
R_affx_bpmap_parser.cpp:488:32: warning: 'probelength' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(probelength)[j] = (int)seqHit.ProbeLength;
~~~~~~~^~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:467:32: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(strand)[j] = (unsigned int)seqHit.TopStrand;
~~~~~~~^~~~~~~~
R_affx_bpmap_parser.cpp:475:41: warning: 'probeseq' may be used uninitialized in this function [-Wmaybe-uninitialized]
SET_STRING_ELT(probeseq, j, mkChar(cstr));
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:502:39: warning: 'mmy' may be used uninitialized in this function [-Wmaybe-uninitialized]
SET_VECTOR_ELT(seqObj, kk, mmy);
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:463:32: warning: 'mmx' may be used uninitialized in this function [-Wmaybe-uninitialized]
INTEGER(mmx)[j] = seqHit.MMX;
~~~~~~~^~~~~
R_affx_bpmap_parser.cpp:495:35: warning: 'pmy' may be used uninitialized in this function [-Wmaybe-uninitialized]
SET_VECTOR_ELT(seqObj, kk, pmy);
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:493:35: warning: 'pmx' may be used uninitialized in this function [-Wmaybe-uninitialized]
SET_VECTOR_ELT(seqObj, kk, pmx);
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_clf_pgf_parser.cpp -o R_affx_clf_pgf_parser.o
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:39,
from R_affx_clf_pgf_parser.cpp:11:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:71,
from fusion_sdk/portability/affy-base-types.h:56,
from fusion_sdk/file/TsvFile/TsvFile.h:30,
from fusion_sdk/file/TsvFile/ClfFile.h:31,
from R_affx_clf_pgf_parser.cpp:2:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
In file included from fusion_sdk/file/TsvFile/ClfFile.h:31,
from R_affx_clf_pgf_parser.cpp:2:
fusion_sdk/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion_sdk/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
(that); /* unused var */
~^~~~~
R_affx_clf_pgf_parser.cpp: In function 'SEXPREC* R_affx_get_clf_file(SEXP, SEXP, SEXP)':
R_affx_clf_pgf_parser.cpp:284:21: warning: catching polymorphic type 'class Except' by value [-Wcatch-value=]
} catch (Except ex) {
^~
R_affx_clf_pgf_parser.cpp: In function 'SEXPREC* R_affx_get_pgf_file(SEXP, SEXP, SEXP, SEXP)':
R_affx_clf_pgf_parser.cpp:327:21: warning: catching polymorphic type 'class Except' by value [-Wcatch-value=]
} catch (Except ex) {
^~
R_affx_clf_pgf_parser.cpp: In function 'void R_affx_get_body(affx::PgfFile*, SEXP, SEXP)':
R_affx_clf_pgf_parser.cpp:161:23: warning: 'pindices' may be used uninitialized in this function [-Wmaybe-uninitialized]
currIndex = pindices[i];
~~~~~~~~~~^~~~~~~~~~~~~
R_affx_clf_pgf_parser.cpp:132:4: warning: 'currIndex' may be used uninitialized in this function [-Wmaybe-uninitialized]
if (nProbesets < currIndex) continue;
^~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I. -Ifusion_sdk/calvin_files/array/src -Ifusion_sdk/calvin_files/data/src -Ifusion_sdk/calvin_files/exception/src -Ifusion_sdk/calvin_files/fusion/src -Ifusion_sdk/calvin_files/fusion/src/GCOSAdapter -Ifusion_sdk/calvin_files/fusion/src/CalvinAdapter -Ifusion_sdk/calvin_files/parameter/src -Ifusion_sdk/calvin_files/parsers/src -Ifusion_sdk/calvin_files/portability/src -Ifusion_sdk/calvin_files/template/src -Ifusion_sdk/calvin_files/utils/src -Ifusion_sdk/calvin_files/writers/src -Ifusion_sdk/file -Ifusion_sdk/file/TsvFile -Ifusion_sdk/portability -Ifusion_sdk/util -Ifusion_sdk -D_USE_MEM_MAPPING_ -D_MSC_VER -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_chp_parser.cpp -o R_affx_chp_parser.o
In file included from fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
from fusion_sdk/calvin_files/exception/src/ExceptionBase.h:24,
from fusion_sdk/calvin_files/data/src/DataException.h:27,
from fusion_sdk/calvin_files/data/src/GenericData.h:31,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from R_affx_chp_parser.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
#define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
In file included from ./_mingw.h:16,
from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from R_affx_chp_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
#define WINVER 0x0502
In file included from C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:39,
from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/R_ext/RS.h:55: warning: "ERROR" redefined
#define ERROR ),error(R_problem_buf);}
In file included from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:71,
from fusion_sdk/calvin_files/data/src/GenericData.h:28,
from fusion_sdk/calvin_files/fusion/src/FusionCHPData.h:26,
from R_affx_chp_parser.cpp:1:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/wingdi.h:75: note: this is the location of the previous definition
#define ERROR 0
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h: In function 'SEXPREC* R_affx_GetCHPGenotypingResults(affymetrix_fusion_io::FusionCHPLegacyData*)':
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'nocall' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:38: note: 'nocall' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~~~~~
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'bb' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:34: note: 'bb' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'ab' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:30: note: 'ab' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'aa' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:26: note: 'aa' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~
In file included from R_affx_chp_parser.cpp:21:
C:/Users/BIOCBU~1/BBS-3~1.13-/R/include/Rdefines.h:142:46: warning: 'ras1' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
^
R_affx_chp_parser.cpp:318:14: note: 'ras1' was declared here
SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
^~~~
R_affx_chp_parser.cpp:360:11: warning: 'ras2' may be used uninitialized in this function [-Wmaybe-uninitialized]
REAL(ras2)[i] = f.GetRAS2();
~~~~^~~~~~
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o affxparser.dll tmp.def fusion_sdk/calvin_files/data/src/CDFData.o fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.o fusion_sdk/calvin_files/data/src/CDFProbeInformation.o fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.o fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.o fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.o fusion_sdk/calvin_files/data/src/CELData.o fusion_sdk/calvin_files/data/src/CHPBackgroundZone.o fusion_sdk/calvin_files/data/src/CHPData.o fusion_sdk/calvin_files/data/src/CHPExpressionEntry.o fusion_sdk/calvin_files/data/src/CHPMultiDataData.o fusion_sdk/calvin_files/data/src/CHPTilingData.o fusion_sdk/calvin_files/data/src/CHPQuantificationData.o fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.o fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.o fusion_sdk/calvin_files/data/src/CHPUniversalEntry.o fusion_sdk/calvin_files/data/src/ColumnInfo.o fusion_sdk/calvin_files/data/src/DataGroup.o fusion_sdk/calvin_files/data/src/DataGroupHeader.o fusion_sdk/calvin_files/data/src/DataSet.o fusion_sdk/calvin_files/data/src/DataSetHeader.o fusion_sdk/calvin_files/data/src/FileHeader.o fusion_sdk/calvin_files/data/src/GenericData.o fusion_sdk/calvin_files/data/src/GenericDataHeader.o fusion_sdk/calvin_files/exception/src/ExceptionBase.o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.o fusion_sdk/calvin_files/fusion/src/FusionCDFData.o fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o fusion_sdk/calvin_files/fusion/src/FusionCELData.o fusion_sdk/calvin_files/fusion/src/FusionCHPData.o fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.o fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.o fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.o fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.o fusion_sdk/calvin_files/parsers/src/CDFFileReader.o fusion_sdk/calvin_files/parsers/src/CelFileReader.o fusion_sdk/calvin_files/parsers/src/CHPFileReader.o fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.o fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.o fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.o fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.o fusion_sdk/calvin_files/parsers/src/DataGroupReader.o fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.o fusion_sdk/calvin_files/parsers/src/DataSetReader.o fusion_sdk/calvin_files/parsers/src/FileHeaderReader.o fusion_sdk/calvin_files/parsers/src/FileInput.o fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.o fusion_sdk/calvin_files/parsers/src/GenericFileReader.o fusion_sdk/calvin_files/utils/src/AffymetrixGuid.o fusion_sdk/calvin_files/utils/src/DateTime.o fusion_sdk/calvin_files/utils/src/FileUtils.o fusion_sdk/calvin_files/utils/src/StringUtils.o fusion_sdk/calvin_files/utils/src/checksum.o fusion_sdk/file/BPMAPFileData.o fusion_sdk/file/BPMAPFileWriter.o fusion_sdk/file/CDFFileData.o fusion_sdk/file/CELFileData.o fusion_sdk/file/CHPFileData.o fusion_sdk/file/FileIO.o fusion_sdk/file/FileWriter.o fusion_sdk/file/TsvFile/ClfFile.o fusion_sdk/file/TsvFile/PgfFile.o fusion_sdk/file/TsvFile/TsvFile.o fusion_sdk/util/AffxByteArray.o fusion_sdk/util/AffxConv.o fusion_sdk/util/MsgStream.o fusion_sdk/util/Util.o fusion_sdk/util/Err.o fusion_sdk/util/Fs.o fusion_sdk/util/Verbose.o fusion_sdk/util/RowFile.o fusion_sdk/util/TableFile.o fusion_sdk/util/Convert.o R_affx_cel_parser.o R_affx_cdf_parser.o R_affx_cdf_extras.o R_affx_bpmap_parser.o R_affx_clf_pgf_parser.o R_affx_chp_parser.o -lws2_32 -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/affxparser.buildbin-libdir/affxparser/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'affxparser' as affxparser_1.64.1.zip
* DONE (affxparser)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'affxparser' successfully unpacked and MD5 sums checked