* installing *source* package 'island' ...
** package 'island' successfully unpacked and MD5 sums checked
** using staged installation
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
using C compiler: 'gcc.exe (GCC) 13.3.0'
make[1]: Entering directory '/d/temp/2024_12_21_01_50_00_6285/RtmpyKQ7be/R.INSTALL2213055407a33/island/src'
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Checking_for_Parameter_Correctness.c -o Checking_for_Parameter_Correctness.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Counting_Replicates_per_Time.c -o Counting_Replicates_per_Time.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Counting_Type_of_Transitions.c -o Counting_Type_of_Transitions.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Create_Binary_Combination.c -o Create_Binary_Combination.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c EUCLIDIAN_DISTANCE_MATRIX.c -o EUCLIDIAN_DISTANCE_MATRIX.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c GSL_MacKenzie_NLL_Uneven_Function.c -o GSL_MacKenzie_NLL_Uneven_Function.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c GSL_MacKenzie_NLLikelihood_Function.c -o GSL_MacKenzie_NLLikelihood_Function.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c GSL_Minimization_Simplex.c -o GSL_Minimization_Simplex.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c GSL_NLL_Function_Uneven.c -o GSL_NLL_Function_Uneven.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c GSL_NLLikelihood_Function.c -o GSL_NLLikelihood_Function.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c IO_AKAIKE_Model_Selection.c -o IO_AKAIKE_Model_Selection.o
IO_AKAIKE_Model_Selection.c: In function 'Model_Selection_AIC_Latex_Table':
IO_AKAIKE_Model_Selection.c:56:11: warning: unused variable 'p' [-Wunused-variable]
56 | char * p;
| ^
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c IO_Missing_Values.c -o IO_Missing_Values.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.c -o MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.o
MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.c: In function 'MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION':
MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.c:57:15: warning: unused variable 's' [-Wunused-variable]
57 | int i,j,k,l,s, n;
| ^
MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.c:57:13: warning: unused variable 'l' [-Wunused-variable]
57 | int i,j,k,l,s, n;
| ^
MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.c: In function 'MODEL_SELECTION_UPGMA_MacKENZIE_DRIVER':
MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.c:154:19: warning: unused variable 'n' [-Wunused-variable]
154 | int i,j,k,l,s, n;
| ^
MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.c:154:15: warning: unused variable 's' [-Wunused-variable]
154 | int i,j,k,l,s, n;
| ^
MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.c:154:13: warning: unused variable 'l' [-Wunused-variable]
154 | int i,j,k,l,s, n;
| ^
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MODEL_SELECTION_UPGMA_MacKENZIE_R_SHLIB.c -o MODEL_SELECTION_UPGMA_MacKENZIE_R_SHLIB.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MODEL_SELECTION_UPGMA_R_FUNCTION.c -o MODEL_SELECTION_UPGMA_R_FUNCTION.o
MODEL_SELECTION_UPGMA_R_FUNCTION.c: In function 'MODEL_SELECTION_UPGMA_R_FUNCTION':
MODEL_SELECTION_UPGMA_R_FUNCTION.c:35:15: warning: unused variable 's' [-Wunused-variable]
35 | int i,j,k,l,s, n;
| ^
MODEL_SELECTION_UPGMA_R_FUNCTION.c:35:13: warning: unused variable 'l' [-Wunused-variable]
35 | int i,j,k,l,s, n;
| ^
MODEL_SELECTION_UPGMA_R_FUNCTION.c: In function 'MODEL_SELECTION_UPGMA_DRIVER':
MODEL_SELECTION_UPGMA_R_FUNCTION.c:123:19: warning: unused variable 'n' [-Wunused-variable]
123 | int i,j,k,l,s, n;
| ^
MODEL_SELECTION_UPGMA_R_FUNCTION.c:123:15: warning: unused variable 's' [-Wunused-variable]
123 | int i,j,k,l,s, n;
| ^
MODEL_SELECTION_UPGMA_R_FUNCTION.c:123:13: warning: unused variable 'l' [-Wunused-variable]
123 | int i,j,k,l,s, n;
| ^
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MODEL_SELECTION_UPGMA_R_SHLIB.c -o MODEL_SELECTION_UPGMA_R_SHLIB.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MacKenzie_NLLikelihood_Function.c -o MacKenzie_NLLikelihood_Function.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Parameter_Model.c -o Parameter_Model.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Parameter_Space_R_SHLIB.c -o Parameter_Space_R_SHLIB.o
Parameter_Space_R_SHLIB.c: In function 'Parameter_Space_Initialization_R_SHLIB':
Parameter_Space_R_SHLIB.c:59:10: warning: unused variable 'j' [-Wunused-variable]
59 | int i, j, key;
| ^
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Probability_Rates.c -o Probability_Rates.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.c -o R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.o
R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.c: In function 'R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization':
R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.c:14:15: warning: unused variable 's' [-Wunused-variable]
14 | int i,j,k,l,s, n;
| ^
R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.c:14:13: warning: unused variable 'l' [-Wunused-variable]
14 | int i,j,k,l,s, n;
| ^
R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.c: In function 'mle_MacKenzie_NLL_Uneven_Minimization_DRIVER':
R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.c:80:19: warning: unused variable 'n' [-Wunused-variable]
80 | int i,j,k,l,s, n;
| ^
R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.c:80:15: warning: unused variable 's' [-Wunused-variable]
80 | int i,j,k,l,s, n;
| ^
R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.c:80:13: warning: unused variable 'l' [-Wunused-variable]
80 | int i,j,k,l,s, n;
| ^
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_SHLIB___mle_MacKenzie_NLLikelihood_Minimization.c -o R_SHLIB___mle_MacKenzie_NLLikelihood_Minimization.o
R_SHLIB___mle_MacKenzie_NLLikelihood_Minimization.c: In function 'R_SHLIB___mle_MacKenzie_NLLikelihood_Minimization':
R_SHLIB___mle_MacKenzie_NLLikelihood_Minimization.c:76:7: warning: unused variable 'i' [-Wunused-variable]
76 | int i,j,k,m;
| ^
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_SHLIB___mle_NLL_Uneven_Minimization.c -o R_SHLIB___mle_NLL_Uneven_Minimization.o
R_SHLIB___mle_NLL_Uneven_Minimization.c: In function 'R_SHLIB___mle_NLL_Uneven_Minimization':
R_SHLIB___mle_NLL_Uneven_Minimization.c:70:15: warning: unused variable 's' [-Wunused-variable]
70 | int i,j,k,l,s, n;
| ^
R_SHLIB___mle_NLL_Uneven_Minimization.c:70:13: warning: unused variable 'l' [-Wunused-variable]
70 | int i,j,k,l,s, n;
| ^
R_SHLIB___mle_NLL_Uneven_Minimization.c: In function 'mle_NLLikelihood_Minimization_DRIVER':
R_SHLIB___mle_NLL_Uneven_Minimization.c:151:19: warning: unused variable 'n' [-Wunused-variable]
151 | int i,j,k,l,s, n;
| ^
R_SHLIB___mle_NLL_Uneven_Minimization.c:151:15: warning: unused variable 's' [-Wunused-variable]
151 | int i,j,k,l,s, n;
| ^
R_SHLIB___mle_NLL_Uneven_Minimization.c:151:13: warning: unused variable 'l' [-Wunused-variable]
151 | int i,j,k,l,s, n;
| ^
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Rates_into_Probabilities.c -o Rates_into_Probabilities.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c SP_Matrix_Data.c -o SP_Matrix_Data.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Time_Control.c -o Time_Control.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Transition_Matrix.c -o Transition_Matrix.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c UPGMA_CLUSTERING_PARTITION.c -o UPGMA_CLUSTERING_PARTITION.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c init.c -o init.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mle_Col_Ext_Uneven_Matrix_R_SHLIB.c -o mle_Col_Ext_Uneven_Matrix_R_SHLIB.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mle_MacKenzie_Uneven_Matrix_R_SHLIB.c -o mle_MacKenzie_Uneven_Matrix_R_SHLIB.o
gcc -I"D:/RCompile/recent/R-4.4.2/include" -DNDEBUG -I. -I/include -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DNON_CPGPLOT_REPRESENTATION -DR_SHLIB -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c upgma_clustering.c -o upgma_clustering.o
gcc -shared -s -static-libgcc -o island.dll tmp.def Checking_for_Parameter_Correctness.o Counting_Replicates_per_Time.o Counting_Type_of_Transitions.o Create_Binary_Combination.o EUCLIDIAN_DISTANCE_MATRIX.o GSL_MacKenzie_NLL_Uneven_Function.o GSL_MacKenzie_NLLikelihood_Function.o GSL_Minimization_Simplex.o GSL_NLL_Function_Uneven.o GSL_NLLikelihood_Function.o IO_AKAIKE_Model_Selection.o IO_Missing_Values.o MODEL_SELECTION_UPGMA_MacKENZIE_R_FUNCTION.o MODEL_SELECTION_UPGMA_MacKENZIE_R_SHLIB.o MODEL_SELECTION_UPGMA_R_FUNCTION.o MODEL_SELECTION_UPGMA_R_SHLIB.o MacKenzie_NLLikelihood_Function.o Parameter_Model.o Parameter_Space_R_SHLIB.o Probability_Rates.o R_SHLIB___mle_MacKenzie_NLL_Uneven_Minimization.o R_SHLIB___mle_MacKenzie_NLLikelihood_Minimization.o R_SHLIB___mle_NLL_Uneven_Minimization.o Rates_into_Probabilities.o SP_Matrix_Data.o Time_Control.o Transition_Matrix.o UPGMA_CLUSTERING_PARTITION.o init.o mle_Col_Ext_Uneven_Matrix_R_SHLIB.o mle_MacKenzie_Uneven_Matrix_R_SHLIB.o upgma_clustering.o -L. -L/lib -lgsl -lgslcblas -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib -LD:/RCompile/recent/R-4.4.2/bin/x64 -lR
make[1]: Leaving directory '/d/temp/2024_12_21_01_50_00_6285/RtmpyKQ7be/R.INSTALL2213055407a33/island/src'
make[1]: Entering directory '/d/temp/2024_12_21_01_50_00_6285/RtmpyKQ7be/R.INSTALL2213055407a33/island/src'
make[1]: Leaving directory '/d/temp/2024_12_21_01_50_00_6285/RtmpyKQ7be/R.INSTALL2213055407a33/island/src'
installing to d:/Rcompile/CRANpkg/lib/4.4/00LOCK-island/00new/island/libs/x64
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'island' as island_0.2.10.zip
* DONE (island)