* installing *source* package ‘rlibkriging’ ...
** package ‘rlibkriging’ successfully unpacked and MD5 sums checked
** using staged installation
set CMAKE_BIN=/usr/bin/cmake3
set CC=/usr/local/clang18/bin/clang
set FC=/usr/local/clang18/bin/flang-new
set CFLAGS=-isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3
set CXX=/usr/local/clang18/bin/clang++
set CXXFLAGS=-std=gnu++17 -isystem /usr/local/clang18/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/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64
travis-ci
----------------------------------------------------------------
Look for HDF5 installation
----------------------------------------------------------------
-- [31mC [32mo [33ml [34mo [35mr [36mm [37mo [1;31md [1;32me [1;33me [1;34mn [1;35ma [1;36mb [1;37ml [31me [32md [m
fatal: not a git repository (or any parent up to mount point /data)
Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set).
-- The C compiler identification is Clang 18.1.4
-- The CXX compiler identification is Clang 18.1.4
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/local/clang18/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/clang18/bin/clang++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- *** set cmake policy CMP0025 to NEW
-- CMAKE_CXX_STANDARD = 11
-- Configuring Armadillo 11.4.2
--
-- *** WARNING: variable 'CMAKE_CXX_FLAGS' is not empty; this may cause problems!
--
-- Detected Clang 6.0 or later
-- ARMA_USE_EXTERN_RNG = true
-- CMAKE_SYSTEM_NAME = Linux
-- CMAKE_CXX_COMPILER_ID = Clang
-- CMAKE_CXX_COMPILER_VERSION = 18.1.4
-- CMAKE_COMPILER_IS_GNUCXX =
--
-- *** Options:
-- BUILD_SHARED_LIBS = off
-- DETECT_HDF5 = true
-- OPENBLAS_PROVIDES_LAPACK = OFF
-- ALLOW_FLEXIBLAS_LINUX = ON
-- ALLOW_OPENBLAS_MACOS = OFF
-- ALLOW_BLAS_LAPACK_MACOS = OFF
-- BUILD_SMOKE_TEST = OFF
--
-- *** Looking for external libraries
-- Found FlexiBLAS: /usr/lib64/libflexiblas.so
-- Found ATLAS: /usr/lib64/atlas/libtatlas.so
-- Found BLAS: /usr/lib64/libblas.so
-- Found LAPACK: /usr/lib64/liblapack.so
-- FlexiBLAS_FOUND = YES
-- MKL_FOUND = NO
-- OpenBLAS_FOUND = NO
-- ATLAS_FOUND = YES
-- BLAS_FOUND = YES
-- LAPACK_FOUND = YES
--
-- *** Using FlexiBLAS to access BLAS and LAPACK functions.
-- *** https://www.mpi-magdeburg.mpg.de/projects/flexiblas
-- *** WARNING: SuperLU and ARPACK must also link with FlexiBLAS.
--
-- *** If using FlexiBLAS causes problems,
-- *** rerun cmake with FlexiBLAS detection disabled:
-- *** cmake -D ALLOW_FLEXIBLAS_LINUX=false .
--
-- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.0")
-- HDF5_FOUND = TRUE
-- ARMA_HDF5_INCLUDE_DIR = /data/gannet/ripley/R/packages/tests-clang/rlibkriging/inst/hdf5/include
--
-- *** If use of HDF5 is causing problems,
-- *** rerun cmake with HDF5 detection disabled:
-- *** cmake -D DETECT_HDF5=false .
--
-- Found ARPACK: /usr/lib64/libarpack.so
-- ARPACK_FOUND = YES
-- Looking for SuperLU version 5
-- Found SuperLU: /usr/lib64/libsuperlu.so
-- SuperLU_FOUND = YES
-- SuperLU_INCLUDE_DIR = /usr/include/SuperLU
--
-- *** Result of configuration:
-- *** ARMA_USE_WRAPPER = true
-- *** ARMA_USE_LAPACK = true
-- *** ARMA_USE_BLAS = true
-- *** ARMA_USE_ATLAS = false
-- *** ARMA_USE_HDF5_CMAKE = true
-- *** ARMA_USE_ARPACK = true
-- *** ARMA_USE_EXTERN_RNG = true
-- *** ARMA_USE_SUPERLU = true
--
-- *** Armadillo wrapper library will use the following libraries:
-- *** ARMA_LIBS = /usr/lib64/libflexiblas.so;/data/gannet/ripley/R/packages/tests-clang/rlibkriging/inst/hdf5/lib/libhdf5.a;/usr/lib64/libsz.so;/usr/lib64/libaec.so;/usr/lib64/libz.so;/usr/lib64/libarpack.so;/usr/lib64/libsuperlu.so
--
-- Copying /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/armadillo/include/ to /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build/armadillo/tmp/include/
-- Generating /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build/armadillo/tmp/include/config.hpp
-- CMAKE_CXX_FLAGS = -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -O2
-- CMAKE_SHARED_LINKER_FLAGS = -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -Wl,--no-as-needed
-- CMAKE_REQUIRED_INCLUDES = /data/gannet/ripley/R/packages/tests-clang/rlibkriging/inst/hdf5/include;/usr/include/SuperLU
--
-- CMAKE_INSTALL_PREFIX = /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build/installed
-- CMAKE_INSTALL_LIBDIR = lib
-- CMAKE_INSTALL_INCLUDEDIR = include
-- CMAKE_INSTALL_DATADIR = share
-- CMAKE_INSTALL_BINDIR = bin
-- Generating '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build/armadillo/ArmadilloConfig.cmake'
-- Generating '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build/armadillo/ArmadilloConfigVersion.cmake'
-- Generating '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build/armadillo/InstallFiles/ArmadilloConfig.cmake'
-- Generating '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build/armadillo/InstallFiles/ArmadilloConfigVersion.cmake'
-- Copying /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/armadillo/misc/ to /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build/armadillo/tmp/misc/
-- Generating '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build/armadillo/tmp/misc/armadillo.pc'
-- Compiling lbfgsb_cpp as an external library
-- Compilation of lbfgsb_cpp done
-- Build static library
-- Static analysis available but disabled as requested.
-- Octave binding available [v6.4.0] but disabled as requested.
-- Could NOT find Matlab (missing: Matlab_INCLUDE_DIRS MAIN_PROGRAM) (found version "NOTFOUND")
-- Matlab binding not available
-- Found PythonInterp: /usr/bin/python3 (found suitable version "3.10.11", minimum required is "3.6")
-- Checking Python requirements
✘ Module pytest is NOT available
✔ Module numpy>=1.18 is available
✔ Module setuptools is available
-- Python requirement failure:
python3 interpreter found: /usr/bin/python3
-- Python binding not available.
-- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY
-- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success
-- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY
-- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success
-- Performing Test COMPILER_HAS_DEPRECATED_ATTR
-- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success
-- clang-format target for updating code format is available
-- doc target for documentation generation is available
-- Configuring done (9.8s)
-- Generating done (0.1s)
-- Build files have been written to: /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build
gmake[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build'
make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build'
make[3]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build'
make[4]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build'
make[4]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build'
make[4]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build'
[ 3%] Building CXX object armadillo/CMakeFiles/armadillo.dir/src/wrapper1.cpp.o
[ 7%] Building CXX object armadillo/CMakeFiles/armadillo.dir/src/wrapper2.cpp.o
make[4]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build'
make[4]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build'
make[4]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/build'
[ 10%] Building C object lbfgsb_cpp/CMakeFiles/lbfgsb_cpp.dir/Lbfgsb.3.0/blas.c.o
[ 14%] Building C object lbfgsb_cpp/CMakeFiles/lbfgsb_cpp.dir/Lbfgsb.3.0/lbfgsb.c.o
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:389:11: warning: unused variable 'o__1' [-Wunused-variable]
389 | olist o__1;
| ^~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:499:19: warning: unused variable 'io___56' [-Wunused-variable]
499 | static cilist io___56 = { 0, 6, 0, fmt_1002, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:500:19: warning: unused variable 'io___57' [-Wunused-variable]
500 | static cilist io___57 = { 0, 0, 0, fmt_1003, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:501:19: warning: unused variable 'io___58' [-Wunused-variable]
501 | static cilist io___58 = { 0, 6, 0, fmt_1001, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:502:19: warning: unused variable 'io___60' [-Wunused-variable]
502 | static cilist io___60 = { 0, 6, 0, fmt_1005, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:503:19: warning: unused variable 'io___62' [-Wunused-variable]
503 | static cilist io___62 = { 0, 6, 0, fmt_1006, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:504:19: warning: unused variable 'io___63' [-Wunused-variable]
504 | static cilist io___63 = { 0, 6, 0, fmt_1005, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:505:19: warning: unused variable 'io___65' [-Wunused-variable]
505 | static cilist io___65 = { 0, 6, 0, fmt_1008, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:506:19: warning: unused variable 'io___69' [-Wunused-variable]
506 | static cilist io___69 = { 0, 6, 0, fmt_1004, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:507:19: warning: unused variable 'io___70' [-Wunused-variable]
507 | static cilist io___70 = { 0, 6, 0, fmt_1007, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1259:25: warning: variable 'nbdd' set but not used [-Wunused-but-set-variable]
1259 | static integer i__, nbdd;
| ^
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1262:19: warning: unused variable 'io___75' [-Wunused-variable]
1262 | static cilist io___75 = { 0, 6, 0, 0, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1263:19: warning: unused variable 'io___76' [-Wunused-variable]
1263 | static cilist io___76 = { 0, 6, 0, 0, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1264:19: warning: unused variable 'io___77' [-Wunused-variable]
1264 | static cilist io___77 = { 0, 6, 0, fmt_1001, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1581:19: warning: unused variable 'io___82' [-Wunused-variable]
1581 | static cilist io___82 = { 0, 6, 0, 0, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1582:19: warning: unused variable 'io___90' [-Wunused-variable]
1582 | static cilist io___90 = { 0, 6, 0, fmt_3010, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1583:19: warning: unused variable 'io___99' [-Wunused-variable]
1583 | static cilist io___99 = { 0, 6, 0, fmt_1010, 0 };
| ^~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1584:19: warning: unused variable 'io___104' [-Wunused-variable]
1584 | static cilist io___104 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1585:19: warning: unused variable 'io___111' [-Wunused-variable]
1585 | static cilist io___111 = { 0, 6, 0, fmt_4011, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1586:19: warning: unused variable 'io___112' [-Wunused-variable]
1586 | static cilist io___112 = { 0, 6, 0, fmt_5010, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1587:19: warning: unused variable 'io___113' [-Wunused-variable]
1587 | static cilist io___113 = { 0, 6, 0, fmt_6010, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1588:19: warning: unused variable 'io___116' [-Wunused-variable]
1588 | static cilist io___116 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1589:19: warning: unused variable 'io___121' [-Wunused-variable]
1589 | static cilist io___121 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1590:19: warning: unused variable 'io___122' [-Wunused-variable]
1590 | static cilist io___122 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1591:19: warning: unused variable 'io___123' [-Wunused-variable]
1591 | static cilist io___123 = { 0, 6, 0, fmt_4010, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1592:19: warning: unused variable 'io___124' [-Wunused-variable]
1592 | static cilist io___124 = { 0, 6, 0, fmt_6010, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1593:19: warning: unused variable 'io___125' [-Wunused-variable]
1593 | static cilist io___125 = { 0, 6, 0, fmt_1010, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:1594:19: warning: unused variable 'io___126' [-Wunused-variable]
1594 | static cilist io___126 = { 0, 6, 0, fmt_2010, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:2809:19: warning: unused variable 'io___163' [-Wunused-variable]
2809 | static cilist io___163 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:2810:19: warning: unused variable 'io___164' [-Wunused-variable]
2810 | static cilist io___164 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:2811:19: warning: unused variable 'io___165' [-Wunused-variable]
2811 | static cilist io___165 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:2812:19: warning: unused variable 'io___167' [-Wunused-variable]
2812 | static cilist io___167 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3089:19: warning: unused variable 'io___178' [-Wunused-variable]
3089 | static cilist io___178 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3356:13: warning: unused variable 'i__1' [-Wunused-variable]
3356 | integer i__1;
| ^~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3364:20: warning: unused variable 'i__' [-Wunused-variable]
3364 | static integer i__;
| ^~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3367:19: warning: unused variable 'io___181' [-Wunused-variable]
3367 | static cilist io___181 = { 0, 6, 0, fmt_7001, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3368:19: warning: unused variable 'io___182' [-Wunused-variable]
3368 | static cilist io___182 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3369:19: warning: unused variable 'io___183' [-Wunused-variable]
3369 | static cilist io___183 = { 0, 0, 0, fmt_2001, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3370:19: warning: unused variable 'io___184' [-Wunused-variable]
3370 | static cilist io___184 = { 0, 0, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3371:19: warning: unused variable 'io___185' [-Wunused-variable]
3371 | static cilist io___185 = { 0, 0, 0, fmt_9001, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3372:19: warning: unused variable 'io___186' [-Wunused-variable]
3372 | static cilist io___186 = { 0, 6, 0, fmt_1004, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3373:19: warning: unused variable 'io___188' [-Wunused-variable]
3373 | static cilist io___188 = { 0, 6, 0, fmt_1004, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3374:19: warning: unused variable 'io___189' [-Wunused-variable]
3374 | static cilist io___189 = { 0, 6, 0, fmt_1004, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3476:13: warning: unused variable 'i__1' [-Wunused-variable]
3476 | integer i__1;
| ^~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3485:20: warning: unused variable 'i__' [-Wunused-variable]
3485 | static integer i__, imod;
| ^~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3485:25: warning: variable 'imod' set but not used [-Wunused-but-set-variable]
3485 | static integer i__, imod;
| ^
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3488:19: warning: unused variable 'io___190' [-Wunused-variable]
3488 | static cilist io___190 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3489:19: warning: unused variable 'io___191' [-Wunused-variable]
3489 | static cilist io___191 = { 0, 6, 0, fmt_2001, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3490:19: warning: unused variable 'io___192' [-Wunused-variable]
3490 | static cilist io___192 = { 0, 6, 0, fmt_1004, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3491:19: warning: unused variable 'io___194' [-Wunused-variable]
3491 | static cilist io___194 = { 0, 6, 0, fmt_1004, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3492:19: warning: unused variable 'io___196' [-Wunused-variable]
3492 | static cilist io___196 = { 0, 6, 0, fmt_2001, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3493:19: warning: unused variable 'io___197' [-Wunused-variable]
3493 | static cilist io___197 = { 0, 0, 0, fmt_3001, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3654:13: warning: unused variable 'i__1' [-Wunused-variable]
3654 | integer i__1;
| ^~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3662:20: warning: unused variable 'i__' [-Wunused-variable]
3662 | static integer i__;
| ^~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3665:19: warning: unused variable 'io___198' [-Wunused-variable]
3665 | static cilist io___198 = { 0, 6, 0, fmt_3003, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3666:19: warning: unused variable 'io___199' [-Wunused-variable]
3666 | static cilist io___199 = { 0, 6, 0, fmt_3004, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3667:19: warning: unused variable 'io___200' [-Wunused-variable]
3667 | static cilist io___200 = { 0, 6, 0, fmt_3005, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3668:19: warning: unused variable 'io___201' [-Wunused-variable]
3668 | static cilist io___201 = { 0, 6, 0, fmt_1004, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3669:19: warning: unused variable 'io___203' [-Wunused-variable]
3669 | static cilist io___203 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3670:19: warning: unused variable 'io___204' [-Wunused-variable]
3670 | static cilist io___204 = { 0, 6, 0, fmt_3009, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3671:19: warning: unused variable 'io___205' [-Wunused-variable]
3671 | static cilist io___205 = { 0, 6, 0, fmt_9011, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3672:19: warning: unused variable 'io___206' [-Wunused-variable]
3672 | static cilist io___206 = { 0, 6, 0, fmt_9012, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3673:19: warning: unused variable 'io___207' [-Wunused-variable]
3673 | static cilist io___207 = { 0, 6, 0, fmt_9013, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3674:19: warning: unused variable 'io___208' [-Wunused-variable]
3674 | static cilist io___208 = { 0, 6, 0, fmt_9014, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3675:19: warning: unused variable 'io___209' [-Wunused-variable]
3675 | static cilist io___209 = { 0, 6, 0, fmt_9015, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3676:19: warning: unused variable 'io___210' [-Wunused-variable]
3676 | static cilist io___210 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3677:19: warning: unused variable 'io___211' [-Wunused-variable]
3677 | static cilist io___211 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3678:19: warning: unused variable 'io___212' [-Wunused-variable]
3678 | static cilist io___212 = { 0, 6, 0, fmt_9018, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3679:19: warning: unused variable 'io___213' [-Wunused-variable]
3679 | static cilist io___213 = { 0, 6, 0, fmt_9019, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3680:19: warning: unused variable 'io___214' [-Wunused-variable]
3680 | static cilist io___214 = { 0, 6, 0, fmt_3007, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3681:19: warning: unused variable 'io___215' [-Wunused-variable]
3681 | static cilist io___215 = { 0, 6, 0, fmt_3008, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3682:19: warning: unused variable 'io___216' [-Wunused-variable]
3682 | static cilist io___216 = { 0, 0, 0, fmt_3002, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3683:19: warning: unused variable 'io___217' [-Wunused-variable]
3683 | static cilist io___217 = { 0, 0, 0, fmt_3009, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3684:19: warning: unused variable 'io___218' [-Wunused-variable]
3684 | static cilist io___218 = { 0, 0, 0, fmt_9011, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3685:19: warning: unused variable 'io___219' [-Wunused-variable]
3685 | static cilist io___219 = { 0, 0, 0, fmt_9012, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3686:19: warning: unused variable 'io___220' [-Wunused-variable]
3686 | static cilist io___220 = { 0, 0, 0, fmt_9013, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3687:19: warning: unused variable 'io___221' [-Wunused-variable]
3687 | static cilist io___221 = { 0, 0, 0, fmt_9014, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3688:19: warning: unused variable 'io___222' [-Wunused-variable]
3688 | static cilist io___222 = { 0, 0, 0, fmt_9015, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3689:19: warning: unused variable 'io___223' [-Wunused-variable]
3689 | static cilist io___223 = { 0, 0, 0, fmt_9018, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3690:19: warning: unused variable 'io___224' [-Wunused-variable]
3690 | static cilist io___224 = { 0, 0, 0, fmt_9019, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3691:19: warning: unused variable 'io___225' [-Wunused-variable]
3691 | static cilist io___225 = { 0, 0, 0, fmt_3008, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3986:19: warning: unused variable 'io___228' [-Wunused-variable]
3986 | static cilist io___228 = { 0, 6, 0, fmt_1001, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3987:19: warning: unused variable 'io___242' [-Wunused-variable]
3987 | static cilist io___242 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3988:19: warning: unused variable 'io___243' [-Wunused-variable]
3988 | static cilist io___243 = { 0, 6, 0, 0, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:3989:19: warning: unused variable 'io___246' [-Wunused-variable]
3989 | static cilist io___246 = { 0, 6, 0, fmt_1004, 0 };
| ^~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:4705:16: warning: '&&' within '||' [-Wlogical-op-parentheses]
4705 | if (brackt && (*stp <= stmin || *stp >= stmax) || brackt && stmax - stmin
| ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:4705:16: note: place parentheses around the '&&' expression to silence this warning
4705 | if (brackt && (*stp <= stmin || *stp >= stmax) || brackt && stmax - stmin
| ^
| ( )
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:4705:62: warning: '&&' within '||' [-Wlogical-op-parentheses]
4705 | if (brackt && (*stp <= stmin || *stp >= stmax) || brackt && stmax - stmin
| ~~ ~~~~~~~^~~~~~~~~~~~~~~~
4706 | <= *xtol * stmax) {
| ~~~~~~~~~~~~~~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:4705:62: note: place parentheses around the '&&' expression to silence this warning
4705 | if (brackt && (*stp <= stmin || *stp >= stmax) || brackt && stmax - stmin
| ^
| (
4706 | <= *xtol * stmax) {
|
| )
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:23:16: warning: unused variable 'c__9' [-Wunused-variable]
23 | static integer c__9 = 9;
| ^~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:25:16: warning: unused variable 'c__3' [-Wunused-variable]
25 | static integer c__3 = 3;
| ^~~~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/lbfgsb_cpp/Lbfgsb.3.0/lbfgsb.c:26:16: warning: unused variable 'c__5' [-Wunused-variable]
26 | static integer c__5 = 5;
| ^~~~
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/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/src/lib/Kriging.cpp:585:26: warning: moving a temporary object prevents copy elision [-Wpessimizing-move]
585 | return std::make_tuple(std::move(yhat.col(0)), std::move(yhat.col(1) * std::sqrt(m_sigma2)));
| ^
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/src/lib/Kriging.cpp:585:26: note: remove std::move call here
585 | return std::make_tuple(std::move(yhat.col(0)), std::move(yhat.col(1) * std::sqrt(m_sigma2)));
| ^~~~~~~~~~ ~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/src/lib/Kriging.cpp:585:50: warning: moving a temporary object prevents copy elision [-Wpessimizing-move]
585 | return std::make_tuple(std::move(yhat.col(0)), std::move(yhat.col(1) * std::sqrt(m_sigma2)));
| ^
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/src/lib/Kriging.cpp:585:50: note: remove std::move call here
585 | return std::make_tuple(std::move(yhat.col(0)), std::move(yhat.col(1) * std::sqrt(m_sigma2)));
| ^~~~~~~~~~ ~
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/libK/src/lib/Kriging.cpp:581:10: warning: variable 'loo' set but not used [-Wunused-but-set-variable]
581 | double loo = -1;
| ^
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R Under development (unstable) (2024-04-24 r86484) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> Rcpp::compileAttributes(pkgdir = '.', verbose = TRUE)
Exports from /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/kriging_binding.cpp:
Rcpp::List new_Kriging(std::string kernel)
Rcpp::List new_KrigingFit(arma::vec y, arma::mat X, std::string kernel, std::string regmodel = "constant", bool normalize = false, std::string optim = "BFGS", std::string objective = "LL", Rcpp::Nullable<Rcpp::List> parameters = R_NilValue)
void kriging_fit(Rcpp::List k, arma::vec y, arma::mat X, std::string regmodel = "constant", bool normalize = false, std::string optim = "BFGS", std::string objective = "LL", Rcpp::Nullable<Rcpp::List> parameters = R_NilValue)
Rcpp::List kriging_copy(Rcpp::List k)
Rcpp::List kriging_model(Rcpp::List k)
std::string kriging_summary(Rcpp::List k)
Rcpp::List kriging_predict(Rcpp::List k, arma::mat X, bool stdev = true, bool cov = false, bool deriv = false)
arma::mat kriging_simulate(Rcpp::List k, int nsim, int seed, arma::mat X)
void kriging_update(Rcpp::List k, arma::vec y, arma::mat X)
void kriging_save(Rcpp::List k, std::string filename)
Rcpp::List kriging_logLikelihoodFun(Rcpp::List k, arma::vec theta, bool grad = false, bool hess = false, bool bench = false)
double kriging_logLikelihood(Rcpp::List k)
Rcpp::List kriging_leaveOneOutFun(Rcpp::List k, arma::vec theta, bool grad = false, bool bench = false)
Rcpp::List kriging_leaveOneOutVec(Rcpp::List k, arma::vec theta)
double kriging_leaveOneOut(Rcpp::List k)
Rcpp::List kriging_logMargPostFun(Rcpp::List k, arma::vec theta, bool grad = false, bool bench = false)
double kriging_logMargPost(Rcpp::List k)
std::string kriging_kernel(Rcpp::List k)
std::string kriging_optim(Rcpp::List k)
std::string kriging_objective(Rcpp::List k)
arma::mat kriging_X(Rcpp::List k)
arma::vec kriging_centerX(Rcpp::List k)
arma::vec kriging_scaleX(Rcpp::List k)
arma::vec kriging_y(Rcpp::List k)
double kriging_centerY(Rcpp::List k)
double kriging_scaleY(Rcpp::List k)
bool kriging_normalize(Rcpp::List k)
std::string kriging_regmodel(Rcpp::List k)
arma::mat kriging_F(Rcpp::List k)
arma::mat kriging_T(Rcpp::List k)
arma::mat kriging_M(Rcpp::List k)
arma::vec kriging_z(Rcpp::List k)
arma::vec kriging_beta(Rcpp::List k)
bool kriging_is_beta_estim(Rcpp::List k)
arma::vec kriging_theta(Rcpp::List k)
bool kriging_is_theta_estim(Rcpp::List k)
double kriging_sigma2(Rcpp::List k)
bool kriging_is_sigma2_estim(Rcpp::List k)
Exports from /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/linalg.cpp:
double linalg_get_num_nugget()
void linalg_set_num_nugget(double nugget)
arma::mat linalg_chol_safe(arma::mat X)
void linalg_set_chol_warning(bool warn)
Exports from /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/load.cpp:
Rcpp::List kriging_load(std::string filename)
Rcpp::List noisekriging_load(std::string filename)
Rcpp::List nuggetkriging_load(std::string filename)
Rcpp::List anykriging_load(std::string filename)
Exports from /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/noisekriging_binding.cpp:
Rcpp::List new_NoiseKriging(std::string kernel)
Rcpp::List new_NoiseKrigingFit(arma::vec y, arma::vec noise, arma::mat X, std::string kernel, std::string regmodel = "constant", bool normalize = false, std::string optim = "BFGS", std::string objective = "LL", Rcpp::Nullable<Rcpp::List> parameters = R_NilValue)
void noisekriging_fit(Rcpp::List k, arma::vec y, arma::vec noise, arma::mat X, std::string regmodel = "constant", bool normalize = false, std::string optim = "BFGS", std::string objective = "LL", Rcpp::Nullable<Rcpp::List> parameters = R_NilValue)
Rcpp::List noisekriging_copy(Rcpp::List k)
Rcpp::List noisekriging_model(Rcpp::List k)
std::string noisekriging_summary(Rcpp::List k)
Rcpp::List noisekriging_predict(Rcpp::List k, arma::mat X, bool stdev = true, bool cov = false, bool deriv = false)
arma::mat noisekriging_simulate(Rcpp::List k, int nsim, int seed, arma::mat X)
void noisekriging_update(Rcpp::List k, arma::vec y, arma::vec noise, arma::mat X)
void noisekriging_save(Rcpp::List k, std::string filename)
Rcpp::List noisekriging_logLikelihoodFun(Rcpp::List k, arma::vec theta_sigma2, bool grad = false, bool bench = false)
double noisekriging_logLikelihood(Rcpp::List k)
std::string noisekriging_kernel(Rcpp::List k)
std::string noisekriging_optim(Rcpp::List k)
std::string noisekriging_objective(Rcpp::List k)
arma::mat noisekriging_X(Rcpp::List k)
arma::vec noisekriging_centerX(Rcpp::List k)
arma::vec noisekriging_scaleX(Rcpp::List k)
arma::vec noisekriging_y(Rcpp::List k)
arma::vec noisekriging_noise(Rcpp::List k)
double noisekriging_centerY(Rcpp::List k)
double noisekriging_scaleY(Rcpp::List k)
bool noisekriging_normalize(Rcpp::List k)
std::string noisekriging_regmodel(Rcpp::List k)
arma::mat noisekriging_F(Rcpp::List k)
arma::mat noisekriging_T(Rcpp::List k)
arma::mat noisekriging_M(Rcpp::List k)
arma::vec noisekriging_z(Rcpp::List k)
arma::vec noisekriging_beta(Rcpp::List k)
bool noisekriging_is_beta_estim(Rcpp::List k)
arma::vec noisekriging_theta(Rcpp::List k)
bool noisekriging_is_theta_estim(Rcpp::List k)
double noisekriging_sigma2(Rcpp::List k)
bool noisekriging_is_sigma2_estim(Rcpp::List k)
Exports from /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/nuggetkriging_binding.cpp:
Rcpp::List new_NuggetKriging(std::string kernel)
Rcpp::List new_NuggetKrigingFit(arma::vec y, arma::mat X, std::string kernel, std::string regmodel = "constant", bool normalize = false, std::string optim = "BFGS", std::string objective = "LL", Rcpp::Nullable<Rcpp::List> parameters = R_NilValue)
void nuggetkriging_fit(Rcpp::List k, arma::vec y, arma::mat X, std::string regmodel = "constant", bool normalize = false, std::string optim = "BFGS", std::string objective = "LL", Rcpp::Nullable<Rcpp::List> parameters = R_NilValue)
Rcpp::List nuggetkriging_copy(Rcpp::List k)
Rcpp::List nuggetkriging_model(Rcpp::List k)
std::string nuggetkriging_summary(Rcpp::List k)
Rcpp::List nuggetkriging_predict(Rcpp::List k, arma::mat X, bool stdev = true, bool cov = false, bool deriv = false)
arma::mat nuggetkriging_simulate(Rcpp::List k, int nsim, int seed, arma::mat X)
void nuggetkriging_update(Rcpp::List k, arma::vec y, arma::mat X)
void nuggetkriging_save(Rcpp::List k, std::string filename)
Rcpp::List nuggetkriging_logLikelihoodFun(Rcpp::List k, arma::vec theta_alpha, bool grad = false, bool bench = false)
double nuggetkriging_logLikelihood(Rcpp::List k)
Rcpp::List nuggetkriging_logMargPostFun(Rcpp::List k, arma::vec theta, bool grad = false, bool bench = false)
double nuggetkriging_logMargPost(Rcpp::List k)
std::string nuggetkriging_kernel(Rcpp::List k)
std::string nuggetkriging_optim(Rcpp::List k)
std::string nuggetkriging_objective(Rcpp::List k)
arma::mat nuggetkriging_X(Rcpp::List k)
arma::vec nuggetkriging_centerX(Rcpp::List k)
arma::vec nuggetkriging_scaleX(Rcpp::List k)
arma::vec nuggetkriging_y(Rcpp::List k)
double nuggetkriging_centerY(Rcpp::List k)
double nuggetkriging_scaleY(Rcpp::List k)
bool nuggetkriging_normalize(Rcpp::List k)
std::string nuggetkriging_regmodel(Rcpp::List k)
arma::mat nuggetkriging_F(Rcpp::List k)
arma::mat nuggetkriging_T(Rcpp::List k)
arma::mat nuggetkriging_M(Rcpp::List k)
arma::vec nuggetkriging_z(Rcpp::List k)
arma::vec nuggetkriging_beta(Rcpp::List k)
bool nuggetkriging_is_beta_estim(Rcpp::List k)
arma::vec nuggetkriging_theta(Rcpp::List k)
bool nuggetkriging_is_theta_estim(Rcpp::List k)
double nuggetkriging_sigma2(Rcpp::List k)
bool nuggetkriging_is_sigma2_estim(Rcpp::List k)
double nuggetkriging_nugget(Rcpp::List k)
bool nuggetkriging_is_nugget_estim(Rcpp::List k)
Exports from /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/optim.cpp:
bool optim_is_reparametrized()
void optim_use_reparametrize(bool reparametrize)
double optim_get_theta_lower_factor()
void optim_set_theta_lower_factor(double theta_lower_factor)
double optim_get_theta_upper_factor()
void optim_set_theta_upper_factor(double theta_upper_factor)
bool optim_variogram_bounds_heuristic_used()
void optim_use_variogram_bounds_heuristic(bool variogram_bounds_heuristic)
void optim_log(int l)
int optim_get_max_iteration()
void optim_set_max_iteration(int max_iteration)
double optim_get_gradient_tolerance()
void optim_set_gradient_tolerance(double gradient_tolerance)
double optim_get_objective_rel_tolerance()
void optim_set_objective_rel_tolerance(double objective_rel_tolerance)
Exports from /data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/random.cpp:
void random_reset_seed(unsigned int seed)
double random_randu()
arma::vec random_randu_vec(unsigned int n)
arma::mat random_randu_mat(unsigned int n, unsigned int d)
/data/gannet/ripley/R/packages/tests-clang/rlibkriging/R/RcppExports.R updated.
>
>
** libs
make[1]: warning: -j0 forced in makefile: resetting jobserver mode.
using C++ compiler: ‘clang version 18.1.4’
using C++17
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src'
make[1]: warning: -j0 forced in makefile: resetting jobserver mode.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I"/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/../inst/"/include -include "libKriging/utils/lkalloc.hpp" -DARMA_ALIEN_MEM_ALLOC_FUNCTION=lkalloc::malloc -DARMA_ALIEN_MEM_FREE_FUNCTION=lkalloc::free -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c RcppExports.cpp -o RcppExports.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I"/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/../inst/"/include -include "libKriging/utils/lkalloc.hpp" -DARMA_ALIEN_MEM_ALLOC_FUNCTION=lkalloc::malloc -DARMA_ALIEN_MEM_FREE_FUNCTION=lkalloc::free -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c kriging_binding.cpp -o kriging_binding.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I"/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/../inst/"/include -include "libKriging/utils/lkalloc.hpp" -DARMA_ALIEN_MEM_ALLOC_FUNCTION=lkalloc::malloc -DARMA_ALIEN_MEM_FREE_FUNCTION=lkalloc::free -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c linalg.cpp -o linalg.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I"/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/../inst/"/include -include "libKriging/utils/lkalloc.hpp" -DARMA_ALIEN_MEM_ALLOC_FUNCTION=lkalloc::malloc -DARMA_ALIEN_MEM_FREE_FUNCTION=lkalloc::free -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c load.cpp -o load.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I"/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/../inst/"/include -include "libKriging/utils/lkalloc.hpp" -DARMA_ALIEN_MEM_ALLOC_FUNCTION=lkalloc::malloc -DARMA_ALIEN_MEM_FREE_FUNCTION=lkalloc::free -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c noisekriging_binding.cpp -o noisekriging_binding.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I"/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/../inst/"/include -include "libKriging/utils/lkalloc.hpp" -DARMA_ALIEN_MEM_ALLOC_FUNCTION=lkalloc::malloc -DARMA_ALIEN_MEM_FREE_FUNCTION=lkalloc::free -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c nuggetkriging_binding.cpp -o nuggetkriging_binding.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I"/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/../inst/"/include -include "libKriging/utils/lkalloc.hpp" -DARMA_ALIEN_MEM_ALLOC_FUNCTION=lkalloc::malloc -DARMA_ALIEN_MEM_FREE_FUNCTION=lkalloc::free -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c optim.cpp -o optim.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I"/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/../inst/"/include -include "libKriging/utils/lkalloc.hpp" -DARMA_ALIEN_MEM_ALLOC_FUNCTION=lkalloc::malloc -DARMA_ALIEN_MEM_FREE_FUNCTION=lkalloc::free -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c random.cpp -o random.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o rlibkriging.so RcppExports.o kriging_binding.o linalg.o load.o noisekriging_binding.o nuggetkriging_binding.o optim.o random.o -fopenmp -L/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src/../inst//lib -lKriging -larmadillo -llbfgsb_cpp /usr/lib64/libflexiblas.so /data/gannet/ripley/R/packages/tests-clang/rlibkriging/inst/hdf5/lib/libhdf5.a /usr/lib64/libsz.so /usr/lib64/libaec.so /usr/lib64/libz.so /usr/lib64/libarpack.so /usr/lib64/libsuperlu.so -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lFortran_main -lFortranRuntime -lFortranDecimal -lm
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src'
make[1]: warning: -j0 forced in makefile: resetting jobserver mode.
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/rlibkriging/src'
installing to /data/gannet/ripley/R/packages/tests-clang/rlibkriging.Rcheck/00LOCK-rlibkriging/00new/rlibkriging/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
** 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 (rlibkriging)