Install log for 'DataGraph'

* installing *source* package ‘DataGraph’ ...
** package ‘DataGraph’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (GCC) 13.2.0’
using C++ compiler: ‘g++-13 (GCC) 13.2.0’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/DataGraph/src'
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTArrayConversion.cpp -o DTArrayConversion.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTCharArray.cpp -o DTCharArray.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTDataFile.cpp -o DTDataFile.o
DTDataFile.cpp:532: warning: ignoring '#pragma mark DTDataFile' [-Wunknown-pragmas]
  532 | #pragma mark DTDataFile
      | 
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTDataStorage.cpp -o DTDataStorage.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTDictionary.cpp -o DTDictionary.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTDoubleArray.cpp -o DTDoubleArray.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTDoubleArrayOperators.cpp -o DTDoubleArrayOperators.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTEndianSwap.cpp -o DTEndianSwap.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTError.cpp -o DTError.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTFile.cpp -o DTFile.o
DTFile.cpp:644: warning: ignoring '#pragma mark ' [-Wunknown-pragmas]
  644 | #pragma mark ---------- Read in a single number
      | 
DTFile.cpp:735: warning: ignoring '#pragma mark ' [-Wunknown-pragmas]
  735 | #pragma mark ---------- Read in an array
      | 
DTFile.cpp:1230: warning: ignoring '#pragma mark ' [-Wunknown-pragmas]
 1230 | #pragma mark ---------- Write an array
      | 
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTFloatArray.cpp -o DTFloatArray.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTFloatArrayOperators.cpp -o DTFloatArrayOperators.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTIntArray.cpp -o DTIntArray.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTPoint3D.cpp -o DTPoint3D.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTPointCollection3D.cpp -o DTPointCollection3D.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTRegion1D.cpp -o DTRegion1D.o
DTPointCollection3D.cpp:186: warning: ignoring '#pragma mark Mutable' [-Wunknown-pragmas]
  186 | #pragma mark Mutable version
      | 
DTPointCollection3D.cpp:346: warning: ignoring '#pragma mark Functions' [-Wunknown-pragmas]
  346 | #pragma mark Functions
      | 
DTPointCollection3D.cpp:495: warning: ignoring '#pragma mark I' [-Wunknown-pragmas]
  495 | #pragma mark I/O Routines
      | 
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTRegion3D.cpp -o DTRegion3D.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTShortIntArray.cpp -o DTShortIntArray.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTStringList.cpp -o DTStringList.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTSurface3D.cpp -o DTSurface3D.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTTable.cpp -o DTTable.o
DTTable.cpp:32: warning: ignoring '#pragma mark Table' [-Wunknown-pragmas]
   32 | #pragma mark Table Column
      | 
DTTable.cpp:780: warning: ignoring '#pragma mark DTTableStructure' [-Wunknown-pragmas]
  780 | #pragma mark DTTableStructure
      | 
DTTable.cpp:798: warning: ignoring '#pragma mark Table' [-Wunknown-pragmas]
  798 | #pragma mark Table
      | 
DTTable.cpp:1082: warning: ignoring '#pragma mark Columns' [-Wunknown-pragmas]
 1082 | #pragma mark Columns
      | 
DTTable.cpp:1089: warning: ignoring '#pragma mark Numbers' [-Wunknown-pragmas]
 1089 | #pragma mark Numbers
      | 
DTTable.cpp:1267: warning: ignoring '#pragma mark Date' [-Wunknown-pragmas]
 1267 | #pragma mark Date
      | 
DTTable.cpp:1313: warning: ignoring '#pragma mark Text' [-Wunknown-pragmas]
 1313 | #pragma mark Text
      | 
DTTable.cpp:1459: warning: ignoring '#pragma mark Points' [-Wunknown-pragmas]
 1459 | #pragma mark Points in 3D
      | 
DTTable.cpp:1506: warning: ignoring '#pragma mark Surfaces' [-Wunknown-pragmas]
 1506 | #pragma mark Surfaces
      | 
DTTable.cpp:1552: warning: ignoring '#pragma mark Table' [-Wunknown-pragmas]
 1552 | #pragma mark Table
      | 
DTStringList.cpp: In function 'DTStringList ExtractIndices(const DTStringList&, const DTRange&)':
DTStringList.cpp:173:16: warning: comparison of integer expressions of different signedness: 'ssize_t' {aka 'long int'} and 'size_t' {aka 'long unsigned int'} [-Wsign-compare]
  173 |     if (r.end()>A.NumberOfStrings()) {
      |         ~~~~~~~^~~~~~~~~~~~~~~~~~~~
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTTransform3D.cpp -o DTTransform3D.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTUCharArray.cpp -o DTUCharArray.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTUShortIntArray.cpp -o DTUShortIntArray.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c DTUtilities.cpp -o DTUtilities.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c Driver.cpp -o Driver.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -DDG_NOSTDErrOut -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c RcppExports.cpp -o RcppExports.o
Driver.cpp:722: warning: ignoring '#pragma mark Drivering' [-Wunknown-pragmas]
  722 | #pragma mark Drivering routines
      | 
Driver.cpp:750: warning: ignoring '#pragma mark DataTable' [-Wunknown-pragmas]
  750 | #pragma mark DataTable
      | 
Driver.cpp:888: warning: ignoring '#pragma mark DTBin' [-Wunknown-pragmas]
  888 | #pragma mark DTBin support
      | 
gcc-13 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c register.c -o register.o
g++-13 -std=gnu++17 -shared -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -o DataGraph.so DTArrayConversion.o DTCharArray.o DTDataFile.o DTDataStorage.o DTDictionary.o DTDoubleArray.o DTDoubleArrayOperators.o DTEndianSwap.o DTError.o DTFile.o DTFloatArray.o DTFloatArrayOperators.o DTIntArray.o DTPoint3D.o DTPointCollection3D.o DTRegion1D.o DTRegion3D.o DTShortIntArray.o DTStringList.o DTSurface3D.o DTTable.o DTTransform3D.o DTUCharArray.o DTUShortIntArray.o DTUtilities.o Driver.o RcppExports.o register.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/DataGraph/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/DataGraph/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/DataGraph/src'
installing to /data/gannet/ripley/R/packages/tests-devel/DataGraph.Rcheck/00LOCK-DataGraph/00new/DataGraph/libs
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (DataGraph)