* installing *source* package ‘rbedrock’ ... ** package ‘rbedrock’ successfully unpacked and MD5 sums checked ** using staged installation ==== Configuring rbedrock R package ==== set CC=/usr/local/clang-trunk/bin/clang set CFLAGS=-isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 set CXX=/usr/local/clang-trunk/bin/clang++ -std=gnu++17 set CXXFLAGS=-isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 set LDFLAGS=-L/usr/local/clang/lib64 -L/usr/local/clang-trunk/lib -L/usr/local/lib64 set CMAKE_BIN=/usr/bin/cmake ==== Configuring src/leveldb-mcpe via CMake ==== -- The C compiler identification is Clang 17.0.0 -- The CXX compiler identification is Clang 17.0.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/local/clang-trunk/bin/clang - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/local/clang-trunk/bin/clang++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Looking for unistd.h -- Looking for unistd.h - found -- Looking for crc32c_value in crc32c -- Looking for crc32c_value in crc32c - not found -- Looking for snappy_compress in snappy -- Looking for snappy_compress in snappy - not found -- Looking for malloc in tcmalloc -- Looking for malloc in tcmalloc - not found -- Looking for fdatasync -- Looking for fdatasync - found -- Looking for F_FULLFSYNC -- Looking for F_FULLFSYNC - not found -- Looking for O_CLOEXEC -- Looking for O_CLOEXEC - found -- Performing Test HAVE_CLANG_THREAD_SAFETY -- Performing Test HAVE_CLANG_THREAD_SAFETY - Success -- Performing Test LEVELDB_HAVE_NO_MISSING_FIELD_INITIALIZERS -- Performing Test LEVELDB_HAVE_NO_MISSING_FIELD_INITIALIZERS - Success -- Performing Test HAVE_CXX17_HAS_INCLUDE -- Performing Test HAVE_CXX17_HAS_INCLUDE - Success -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Found ZLIB: /usr/lib64/libz.so (found version "1.2.11") -- Configuring done (33.2s) -- Generating done (0.0s) -- Build files have been written to: /data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/build ** libs using C compiler: ‘clang version 17.0.0 (https://github.com/llvm/llvm-project.git 78d91df452d669570e120cb5c3d5febf7f17475d)’ using C++ compiler: ‘clang version 17.0.0 (https://github.com/llvm/llvm-project.git 78d91df452d669570e120cb5c3d5febf7f17475d)’ make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src' /usr/local/clang-trunk/bin/clang -I"/data/gannet/ripley/R/R-flang/include" -DNDEBUG -pthread -I./leveldb-mcpe/include -I./leveldb-mcpe/build/include -isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c actors.c -o actors.o /usr/local/clang-trunk/bin/clang -I"/data/gannet/ripley/R/R-flang/include" -DNDEBUG -pthread -I./leveldb-mcpe/include -I./leveldb-mcpe/build/include -isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c bedrock_leveldb.c -o bedrock_leveldb.o /usr/local/clang-trunk/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-flang/include" -DNDEBUG -pthread -I./leveldb-mcpe/include -I./leveldb-mcpe/build/include -isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c dummy.cpp -o dummy.o /usr/local/clang-trunk/bin/clang -I"/data/gannet/ripley/R/R-flang/include" -DNDEBUG -pthread -I./leveldb-mcpe/include -I./leveldb-mcpe/build/include -isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o /usr/local/clang-trunk/bin/clang -I"/data/gannet/ripley/R/R-flang/include" -DNDEBUG -pthread -I./leveldb-mcpe/include -I./leveldb-mcpe/build/include -isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c key_conv.c -o key_conv.o key_conv.c:396:12: warning: unused variable 'ret_val' [-Wunused-variable] 396 | size_t ret_val = 0; | ^~~~~~~ 1 warning generated. /usr/local/clang-trunk/bin/clang -I"/data/gannet/ripley/R/R-flang/include" -DNDEBUG -pthread -I./leveldb-mcpe/include -I./leveldb-mcpe/build/include -isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c nbt.c -o nbt.o /usr/local/clang-trunk/bin/clang -I"/data/gannet/ripley/R/R-flang/include" -DNDEBUG -pthread -I./leveldb-mcpe/include -I./leveldb-mcpe/build/include -isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c random.c -o random.o /usr/local/clang-trunk/bin/clang -I"/data/gannet/ripley/R/R-flang/include" -DNDEBUG -pthread -I./leveldb-mcpe/include -I./leveldb-mcpe/build/include -isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c subchunk.c -o subchunk.o /usr/local/clang-trunk/bin/clang -I"/data/gannet/ripley/R/R-flang/include" -DNDEBUG -pthread -I./leveldb-mcpe/include -I./leveldb-mcpe/build/include -isystem /usr/local/clang-trunk/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c support.c -o support.o make --directory=leveldb-mcpe/build make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/build' make[3]: Entering directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/build' make[4]: Entering directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/build' make[4]: Leaving directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/build' make[4]: Entering directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/build' [ 2%] Building CXX object CMakeFiles/leveldb.dir/db/builder.cc.o [ 4%] Building CXX object CMakeFiles/leveldb.dir/db/c.cc.o [ 7%] Building CXX object CMakeFiles/leveldb.dir/db/db_impl.cc.o [ 9%] Building CXX object CMakeFiles/leveldb.dir/db/db_iter.cc.o [ 12%] Building CXX object CMakeFiles/leveldb.dir/db/dbformat.cc.o [ 14%] Building CXX object CMakeFiles/leveldb.dir/db/dumpfile.cc.o [ 17%] Building CXX object CMakeFiles/leveldb.dir/db/filename.cc.o [ 19%] Building CXX object CMakeFiles/leveldb.dir/db/log_reader.cc.o [ 21%] Building CXX object CMakeFiles/leveldb.dir/db/log_writer.cc.o [ 24%] Building CXX object CMakeFiles/leveldb.dir/db/memtable.cc.o [ 26%] Building CXX object CMakeFiles/leveldb.dir/db/repair.cc.o [ 29%] Building CXX object CMakeFiles/leveldb.dir/db/snappy_compressor.cc.o [ 31%] Building CXX object CMakeFiles/leveldb.dir/db/table_cache.cc.o [ 34%] Building CXX object CMakeFiles/leveldb.dir/db/version_edit.cc.o [ 36%] Building CXX object CMakeFiles/leveldb.dir/db/version_set.cc.o [ 39%] Building CXX object CMakeFiles/leveldb.dir/db/write_batch.cc.o [ 41%] Building CXX object CMakeFiles/leveldb.dir/db/zlib_compressor.cc.o [ 43%] Building CXX object CMakeFiles/leveldb.dir/table/block_builder.cc.o [ 46%] Building CXX object CMakeFiles/leveldb.dir/table/block.cc.o [ 48%] Building CXX object CMakeFiles/leveldb.dir/table/filter_block.cc.o [ 51%] Building CXX object CMakeFiles/leveldb.dir/table/format.cc.o [ 53%] Building CXX object CMakeFiles/leveldb.dir/table/iterator.cc.o [ 56%] Building CXX object CMakeFiles/leveldb.dir/table/merger.cc.o [ 58%] Building CXX object CMakeFiles/leveldb.dir/table/table_builder.cc.o [ 60%] Building CXX object CMakeFiles/leveldb.dir/table/table.cc.o [ 63%] Building CXX object CMakeFiles/leveldb.dir/table/two_level_iterator.cc.o [ 65%] Building CXX object CMakeFiles/leveldb.dir/util/arena.cc.o [ 68%] Building CXX object CMakeFiles/leveldb.dir/util/bloom.cc.o [ 70%] Building CXX object CMakeFiles/leveldb.dir/util/cache.cc.o [ 73%] Building CXX object CMakeFiles/leveldb.dir/util/coding.cc.o [ 75%] Building CXX object CMakeFiles/leveldb.dir/util/comparator.cc.o [ 78%] Building CXX object CMakeFiles/leveldb.dir/util/crc32c.cc.o [ 80%] Building CXX object CMakeFiles/leveldb.dir/util/env.cc.o /data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/util/cache.cc:130:14: warning: variable 'count' set but not used [-Wunused-but-set-variable] 130 | uint32_t count = 0; | ^ [ 82%] Building CXX object CMakeFiles/leveldb.dir/util/filter_policy.cc.o [ 85%] Building CXX object CMakeFiles/leveldb.dir/util/hash.cc.o 1 warning generated. [ 87%] Building CXX object CMakeFiles/leveldb.dir/util/logging.cc.o [ 90%] Building CXX object CMakeFiles/leveldb.dir/util/options.cc.o [ 92%] Building CXX object CMakeFiles/leveldb.dir/util/status.cc.o [ 95%] Building CXX object CMakeFiles/leveldb.dir/util/env_posix.cc.o [ 97%] Building CXX object CMakeFiles/leveldb.dir/helpers/memenv/memenv.cc.o [100%] Linking CXX static library libleveldb.a make[4]: Leaving directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/build' [100%] Built target leveldb make[3]: Leaving directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/build' make[2]: Leaving directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src/leveldb-mcpe/build' /usr/local/clang-trunk/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang-trunk/lib -L/usr/local/lib64 -o rbedrock.so actors.o bedrock_leveldb.o dummy.o init.o key_conv.o nbt.o random.o subchunk.o support.o -L./leveldb-mcpe/build -pthread -lleveldb -lz make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-flang2/rbedrock/src' installing to /data/gannet/ripley/R/packages/tests-flang2/rbedrock.Rcheck/00LOCK-rbedrock/00new/rbedrock/libs ** R ** inst ** 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 Error: package or namespace load failed for ‘rbedrock’ in dyn.load(file, DLLpath = DLLpath, ...): unable to load shared object '/data/gannet/ripley/R/packages/tests-flang2/rbedrock.Rcheck/00LOCK-rbedrock/00new/rbedrock/libs/rbedrock.so': /data/gannet/ripley/R/packages/tests-flang2/rbedrock.Rcheck/00LOCK-rbedrock/00new/rbedrock/libs/rbedrock.so: undefined symbol: _ZNSt3__122__libcpp_verbose_abortEPKcz Error: loading failed Execution halted ERROR: loading failed * removing ‘/data/gannet/ripley/R/packages/tests-flang2/rbedrock.Rcheck/rbedrock’