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INSTALL report for RProtoBufLib on tokay2

This page was generated on 2018-10-17 08:44:08 -0400 (Wed, 17 Oct 2018).

Package 1273/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RProtoBufLib 1.2.0
Mike Jiang
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/RProtoBufLib
Branch: RELEASE_3_7
Last Commit: 370e3ba
Last Changed Date: 2018-04-30 10:35:47 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: RProtoBufLib
Version: 1.2.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/RProtoBufLib_1.2.0.tar.gz && rm -rf RProtoBufLib.buildbin-libdir && mkdir RProtoBufLib.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RProtoBufLib.buildbin-libdir RProtoBufLib_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL RProtoBufLib_1.2.0.zip && rm RProtoBufLib_1.2.0.tar.gz RProtoBufLib_1.2.0.zip
StartedAt: 2018-10-16 18:30:49 -0400 (Tue, 16 Oct 2018)
EndedAt: 2018-10-16 18:32:14 -0400 (Tue, 16 Oct 2018)
EllapsedTime: 84.5 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/RProtoBufLib_1.2.0.tar.gz && rm -rf RProtoBufLib.buildbin-libdir && mkdir RProtoBufLib.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RProtoBufLib.buildbin-libdir RProtoBufLib_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL RProtoBufLib_1.2.0.zip && rm RProtoBufLib_1.2.0.tar.gz RProtoBufLib_1.2.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 1966k  100 1966k    0     0  3221k      0 --:--:-- --:--:-- --:--:-- 3272k

install for i386

* installing *source* package 'RProtoBufLib' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I../inst/include/ -Iwin/include/    -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c GatingSet_pb_lib/GatingSet.pb.cc -o GatingSet_pb_lib/GatingSet.pb.o
In file included from GatingSet_pb_lib/GatingSet.pb.cc:12:0:
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = unsigned int; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)7u]':
win/include/google/protobuf/wire_format_lite_inl.h:413:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = long long unsigned int; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)6u]':
win/include/google/protobuf/wire_format_lite_inl.h:414:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = int; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)15u]':
win/include/google/protobuf/wire_format_lite_inl.h:415:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = long long int; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)16u]':
win/include/google/protobuf/wire_format_lite_inl.h:416:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = float; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)2u]':
win/include/google/protobuf/wire_format_lite_inl.h:417:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = double; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)1u]':
win/include/google/protobuf/wire_format_lite_inl.h:418:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
mkdir -p ""C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/include""
cp -r win/include/google "C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/include"
mkdir -p "C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/lib/i386"
cp  win/lib/i386/libprotobuf.a "C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/lib/i386/libprotobuf.a"
cp GatingSet_pb_lib/GatingSet.pb.o C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/lib/i386/GatingSet.pb.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I../inst/include/ -Iwin/include/    -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c dummy.cpp -o dummy.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o RProtoBufLib.dll tmp.def dummy.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'RProtoBufLib'
    finding HTML links ... done
    LdFlags                                 html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'RProtoBufLib' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I../inst/include/ -Iwin/include/    -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c GatingSet_pb_lib/GatingSet.pb.cc -o GatingSet_pb_lib/GatingSet.pb.o
In file included from GatingSet_pb_lib/GatingSet.pb.cc:12:0:
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = unsigned int; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)7u]':
win/include/google/protobuf/wire_format_lite_inl.h:413:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = long long unsigned int; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)6u]':
win/include/google/protobuf/wire_format_lite_inl.h:414:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = int; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)15u]':
win/include/google/protobuf/wire_format_lite_inl.h:415:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = long long int; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)16u]':
win/include/google/protobuf/wire_format_lite_inl.h:416:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = float; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)2u]':
win/include/google/protobuf/wire_format_lite_inl.h:417:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h: In instantiation of 'static bool google::protobuf::internal::WireFormatLite::ReadPackedFixedSizePrimitive(google::protobuf::io::CodedInputStream*, google::protobuf::RepeatedField<T>*) [with CType = double; google::protobuf::internal::WireFormatLite::FieldType DeclaredType = (google::protobuf::internal::WireFormatLite::FieldType)1u]':
win/include/google/protobuf/wire_format_lite_inl.h:418:1:   required from here
win/include/google/protobuf/wire_format_lite_inl.h:383:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
win/include/google/protobuf/wire_format_lite_inl.h:393:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (int i = 0; i < new_entries; ++i) {
                       ^
mkdir -p ""C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/include""
cp -r win/include/google "C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/include"
mkdir -p "C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/lib/x64"
cp  win/lib/x64/libprotobuf.a "C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/lib/x64/libprotobuf.a"
cp GatingSet_pb_lib/GatingSet.pb.o C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/lib/x64/GatingSet.pb.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I../inst/include/ -Iwin/include/    -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c dummy.cpp -o dummy.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o RProtoBufLib.dll tmp.def dummy.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/RProtoBufLib.buildbin-libdir/RProtoBufLib/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RProtoBufLib' as RProtoBufLib_1.2.0.zip
* DONE (RProtoBufLib)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'RProtoBufLib' successfully unpacked and MD5 sums checked
In R CMD INSTALL