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### Running command:
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###   /home/biocbuild/R/R/bin/R CMD INSTALL NetPathMiner
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* installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’
* installing *source* package ‘NetPathMiner’ ...
** using staged installation
'config' variable 'CPP' is defunct
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -E
checking for xmlParseFile in -lxml2... yes
checking for readSBML in -lsbml... no
SBML not found.
libXML2 found
checking for xml2-config... /home/biocbuild/miniforge3/bin/xml2-config
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘gcc (conda-forge gcc 14.2.0-1) 14.2.0’
using C++ compiler: ‘g++ (conda-forge gcc 14.2.0-1) 14.2.0’
gcc -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -DHAVE_XML -I/home/biocbuild/miniforge3/include/libxml2 -I/home/biocbuild/miniforge3/include  -I/usr/local/include    -fPIC  -g -O2  -Wall -c handlesegfault.c -o handlesegfault.o
gcc -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -DHAVE_XML -I/home/biocbuild/miniforge3/include/libxml2 -I/home/biocbuild/miniforge3/include  -I/usr/local/include    -fPIC  -g -O2  -Wall -c hme3m.c -o hme3m.o
gcc -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -DHAVE_XML -I/home/biocbuild/miniforge3/include/libxml2 -I/home/biocbuild/miniforge3/include  -I/usr/local/include    -fPIC  -g -O2  -Wall -c init.c -o init.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -DHAVE_XML -I/home/biocbuild/miniforge3/include/libxml2 -I/home/biocbuild/miniforge3/include  -I/usr/local/include    -fPIC  -g -O2  -Wall  -c kgml_interface.cpp -o kgml_interface.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -DHAVE_XML -I/home/biocbuild/miniforge3/include/libxml2 -I/home/biocbuild/miniforge3/include  -I/usr/local/include    -fPIC  -g -O2  -Wall  -c methods.cpp -o methods.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -DHAVE_XML -I/home/biocbuild/miniforge3/include/libxml2 -I/home/biocbuild/miniforge3/include  -I/usr/local/include    -fPIC  -g -O2  -Wall  -c sbml_interface.cpp -o sbml_interface.o
g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/lib -o NetPathMiner.so handlesegfault.o hme3m.o init.o kgml_interface.o methods.o sbml_interface.o -lxml2 -L/home/biocbuild/miniforge3/lib -lxml2 -L/home/biocbuild/miniforge3/lib -lz -L/home/biocbuild/miniforge3/lib -llzma -L/home/biocbuild/miniforge3/lib -licui18n -licuuc -licudata -L/home/biocbuild/miniforge3/lib -lm -ldl -lopenblas -L/usr/lib/gcc/aarch64-linux-gnu/10.3.1 -lgfortran -lm -L/home/biocbuild/R/R-4.4.1/lib -lR
installing to /home/biocbuild/R/R-4.4.1/site-library/00LOCK-NetPathMiner/00new/NetPathMiner/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** 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 (NetPathMiner)