* installing *source* package ‘smoothbp’ ...
** this is package ‘smoothbp’ version ‘0.2.1’
** package ‘smoothbp’ successfully unpacked and MD5 sums checked
** using staged installation
Using cargo 1.93.0 (083ac5135 2025-12-15)
Using rustc 1.93.0 (254b59607 2026-01-19)
Building for CRAN.
Writing `src/Makevars`.
`tools/config.R` has finished.
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX11.3.1.sdk’
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c entrypoint.c -o entrypoint.o
if [ -d ./vendor ]; then \
echo "=== Using offline vendor directory ==="; \
mkdir -p /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/.cargo && \
printf '[source.crates-io]\nreplace-with = "vendored-sources"\n\n[source.vendored-sources]\ndirectory = "/Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/vendor"\n' > /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/.cargo/config.toml; \
elif [ -f ./rust/vendor.tar.xz ]; then \
echo "=== Using offline vendor tarball ==="; \
tar xf rust/vendor.tar.xz && \
mkdir -p /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/.cargo && \
printf '[source.crates-io]\nreplace-with = "vendored-sources"\n\n[source.vendored-sources]\ndirectory = "/Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/vendor"\n' > /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/.cargo/config.toml; \
fi
=== Using offline vendor tarball ===
export CARGO_HOME=/Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/.cargo && \
export PATH="/opt/R/x86_64/bin:/opt/gfortran/bin:/Applications/CMake.app/CMake.app/Contents/bin:/Library/Frameworks/R.framework/Resources/bin:/opt/gfortran/bin:/opt/R/x86_64/bin:/usr/local/bin:/System/Cryptexes/App/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/Library/TeX/texbin:/usr/local/go/bin:/opt/X11/bin:/Library/Apple/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/local/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/appleinternal/bin:/Users/urbanek/.cargo/bin" && \
RUSTFLAGS=" --print=native-static-libs" cargo build -j 2 --offline --lib --release --manifest-path=./rust/Cargo.toml --target-dir ./rust/target
warning: a `-j` argument was passed to Cargo but Cargo is also configured with an external jobserver in its environment, ignoring the `-j` parameter
Compiling autocfg v1.5.0
Compiling proc-macro2 v1.0.106
Compiling libm v0.2.16
Compiling unicode-ident v1.0.24
Compiling quote v1.0.45
Compiling libc v0.2.186
Compiling paste v1.0.15
Compiling zerocopy v0.8.48
Compiling num-traits v0.2.19
Compiling cfg-if v1.0.4
Compiling bytemuck v1.25.0
Compiling safe_arch v0.7.4
Compiling crossbeam-utils v0.8.21
Compiling getrandom v0.2.17
Compiling rand_core v0.6.4
Compiling wide v0.7.33
Compiling syn v2.0.117
Compiling matrixmultiply v0.3.10
Compiling syn v1.0.109
Compiling approx v0.5.1
Compiling num-complex v0.4.6
Compiling num-integer v0.1.46
Compiling extendr-ffi v0.9.0
Compiling rawpointer v0.2.1
Compiling crossbeam-epoch v0.9.18
Compiling num-rational v0.4.2
Compiling rayon-core v1.13.0
Compiling typenum v1.20.0
Compiling simba v0.6.0
Compiling crossbeam-deque v0.8.6
Compiling extendr-api v0.9.0
Compiling lazy_static v1.5.0
Compiling simba v0.9.1
Compiling ppv-lite86 v0.2.21
Compiling readonly v0.2.13
Compiling rand_chacha v0.3.1
Compiling extendr-macros v0.9.0
Compiling rand v0.8.6
Compiling nalgebra-macros v0.1.0
Compiling nalgebra-macros v0.2.2
Compiling once_cell v1.21.4
Compiling either v1.15.0
Compiling rayon v1.12.0
Compiling rand_distr v0.4.3
Compiling nalgebra v0.29.0
Compiling nalgebra v0.33.3
Compiling statrs v0.16.1
Compiling smoothbp v0.1.0 (/Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/rust)
warning: unused import: `extendr_api::prelude`
--> src/bridge.rs:6:5
|
6 | use extendr_api::prelude::*;
| ^^^^^^^^^^^^^^^^^^^^
|
= note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
warning: fields `p_b0`, `p_b1`, `p_deltas`, `p_om`, and `p_rho` are never read
--> src/model.rs:67:9
|
33 | pub struct Priors {
| ------ fields in this struct
...
67 | pub p_b0: usize,
| ^^^^
68 | pub p_b1: usize,
| ^^^^
69 | pub p_deltas: Vec<usize>,
| ^^^^^^^^
70 | pub p_om: Vec<usize>,
| ^^^^
71 | pub p_rho: Vec<usize>,
| ^^^^^
|
= note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
note: link against the following native artifacts when linking against this static library. The order and any duplication can be significant on some platforms.
note: native-static-libs: -lc -lm -liconv -lR -lSystem -lc -lm
warning: `smoothbp` (lib) generated 2 warnings
Finished `release` profile [optimized] target(s) in 6m 27s
export CARGO_HOME="/Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/.cargo" && \
export PATH="/opt/R/x86_64/bin:/opt/gfortran/bin:/Applications/CMake.app/CMake.app/Contents/bin:/Library/Frameworks/R.framework/Resources/bin:/opt/gfortran/bin:/opt/R/x86_64/bin:/usr/local/bin:/System/Cryptexes/App/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/Library/TeX/texbin:/usr/local/go/bin:/opt/X11/bin:/Library/Apple/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/local/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/appleinternal/bin:/Users/urbanek/.cargo/bin" && \
cargo run -j 2 --offline --release --bin document --manifest-path=./rust/Cargo.toml --target-dir ./rust/target
warning: a `-j` argument was passed to Cargo but Cargo is also configured with an external jobserver in its environment, ignoring the `-j` parameter
Compiling autocfg v1.5.0
Compiling proc-macro2 v1.0.106
Compiling libm v0.2.16
Compiling unicode-ident v1.0.24
Compiling quote v1.0.45
Compiling libc v0.2.186
Compiling zerocopy v0.8.48
Compiling num-traits v0.2.19
Compiling paste v1.0.15
Compiling bytemuck v1.25.0
Compiling cfg-if v1.0.4
Compiling crossbeam-utils v0.8.21
Compiling safe_arch v0.7.4
Compiling getrandom v0.2.17
Compiling rand_core v0.6.4
Compiling wide v0.7.33
Compiling syn v2.0.117
Compiling matrixmultiply v0.3.10
Compiling syn v1.0.109
Compiling num-complex v0.4.6
Compiling approx v0.5.1
Compiling num-integer v0.1.46
Compiling extendr-ffi v0.9.0
Compiling rawpointer v0.2.1
Compiling crossbeam-epoch v0.9.18
Compiling num-rational v0.4.2
Compiling typenum v1.20.0
Compiling rayon-core v1.13.0
Compiling simba v0.6.0
Compiling crossbeam-deque v0.8.6
Compiling extendr-api v0.9.0
Compiling lazy_static v1.5.0
Compiling simba v0.9.1
Compiling ppv-lite86 v0.2.21
Compiling extendr-macros v0.9.0
Compiling nalgebra-macros v0.1.0
Compiling rand_chacha v0.3.1
Compiling nalgebra-macros v0.2.2
Compiling readonly v0.2.13
Compiling rand v0.8.6
Compiling once_cell v1.21.4
Compiling either v1.15.0
Compiling rayon v1.12.0
Compiling rand_distr v0.4.3
Compiling nalgebra v0.29.0
Compiling nalgebra v0.33.3
Compiling statrs v0.16.1
Compiling smoothbp v0.1.0 (/Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/rust)
warning: unused import: `extendr_api::prelude`
--> src/bridge.rs:6:5
|
6 | use extendr_api::prelude::*;
| ^^^^^^^^^^^^^^^^^^^^
|
= note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
warning: fields `p_b0`, `p_b1`, `p_deltas`, `p_om`, and `p_rho` are never read
--> src/model.rs:67:9
|
33 | pub struct Priors {
| ------ fields in this struct
...
67 | pub p_b0: usize,
| ^^^^
68 | pub p_b1: usize,
| ^^^^
69 | pub p_deltas: Vec<usize>,
| ^^^^^^^^
70 | pub p_om: Vec<usize>,
| ^^^^
71 | pub p_rho: Vec<usize>,
| ^^^^^
|
= note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
warning: `smoothbp` (lib) generated 2 warnings
Finished `release` profile [optimized] target(s) in 8m 38s
Running `rust/target/release/document`
# Always clean up CARGOTMP
rm -Rf /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/.cargo;
clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o smoothbp.so entrypoint.o -L./rust/target/release -lsmoothbp -F/Library/Frameworks/R.framework/.. -framework R
rm -Rf /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/.cargo /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/vendor ./rust/target
installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00LOCK-smoothbp/00new/smoothbp/libs
** generating debug symbols (dSYM)
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(std-80c57efd13e5c60f.std.6723c73a6a2c3812-cgu.0.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(panic_unwind-609eec6b68420c23.panic_unwind.8a11b8e3a536324e-cgu.0.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(memchr-7633c0af176ce18f.memchr.62151324e58f9a71-cgu.0.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(std_detect-3d2b83b4ef271faf.std_detect.f484fbc3183826d-cgu.0.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(hashbrown-d63660a4bacc6e0d.hashbrown.d999ac00aa297d90-cgu.0.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(alloc-2ae10ae5c48735a7.alloc.cd66f8b944d0d1ee-cgu.0.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(core-ebd38e986244aca3.core.35ed32324c362c64-cgu.0.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(compiler_builtins-5f28702a8bd39742.compiler_builtins.3e851ac2cc681d13-cgu.087.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(compiler_builtins-5f28702a8bd39742.compiler_builtins.3e851ac2cc681d13-cgu.090.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(compiler_builtins-5f28702a8bd39742.compiler_builtins.3e851ac2cc681d13-cgu.127.rcgu.o) unable to open object file: No such file or directory
warning: (x86_64) /Volumes/Builds/packages/big-sur-x86_64/results/4.6/smoothbp.Rcheck/00_pkg_src/smoothbp/src/./rust/target/release/libsmoothbp.a(compiler_builtins-5f28702a8bd39742.compiler_builtins.3e851ac2cc681d13-cgu.193.rcgu.o) unable to open object file: No such file or directory
** R
** 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 (smoothbp)