* installing *source* package ‘smoothbp’ ...
** this is package ‘smoothbp’ version ‘0.2.2’
** package ‘smoothbp’ successfully unpacked and MD5 sums checked
** using staged installation
Using cargo 1.93.1 (083ac5135 2025-12-15) (Fedora 1.93.1-1.fc42)
Using rustc 1.93.1 (01f6ddf75 2026-02-11) (Fedora 1.93.1-1.fc42)
Building for CRAN.
Writing `src/Makevars`.
`tools/config.R` has finished.
** libs
using C compiler: ‘gcc (GCC) 15.2.1 20260123 (Red Hat 15.2.1-7)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/smoothbp/src'
gcc -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c entrypoint.c -o entrypoint.o
if [ -d ./vendor ]; then \
echo "=== Using offline vendor directory ==="; \
mkdir -p /data/gannet/ripley/R/packages/tests-devel/smoothbp/src/.cargo && \
printf '[source.crates-io]\nreplace-with = "vendored-sources"\n\n[source.vendored-sources]\ndirectory = "/data/gannet/ripley/R/packages/tests-devel/smoothbp/src/vendor"\n' > /data/gannet/ripley/R/packages/tests-devel/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 /data/gannet/ripley/R/packages/tests-devel/smoothbp/src/.cargo && \
printf '[source.crates-io]\nreplace-with = "vendored-sources"\n\n[source.vendored-sources]\ndirectory = "/data/gannet/ripley/R/packages/tests-devel/smoothbp/src/vendor"\n' > /data/gannet/ripley/R/packages/tests-devel/smoothbp/src/.cargo/config.toml; \
fi
=== Using offline vendor tarball ===
export CARGO_HOME=/data/gannet/ripley/R/packages/tests-devel/smoothbp/src/.cargo && \
export PATH="/data/gannet/ripley/bin:/usr/local/bin:/usr/local/texbin:/usr/sbin:/usr/lib64/qt-3.3/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/lib64/openmpi/bin:/data/gannet/ripley/.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 num-traits v0.2.19
Compiling unicode-ident v1.0.24
Compiling quote v1.0.45
Compiling libc v0.2.186
Compiling zerocopy v0.8.48
Compiling paste v1.0.15
Compiling bytemuck v1.25.0
Compiling cfg-if v1.0.4
Compiling getrandom v0.2.17
Compiling safe_arch v0.7.4
Compiling crossbeam-utils v0.8.21
Compiling ppv-lite86 v0.2.21
Compiling wide v0.7.33
Compiling rand_core v0.6.4
Compiling syn v2.0.117
Compiling approx v0.5.1
Compiling num-complex v0.4.6
Compiling matrixmultiply v0.3.10
Compiling syn v1.0.109
Compiling rand_chacha v0.3.1
Compiling num-integer v0.1.46
Compiling rawpointer v0.2.1
Compiling extendr-ffi v0.9.0
Compiling num-rational v0.4.2
Compiling crossbeam-epoch v0.9.18
Compiling rand v0.8.6
Compiling typenum v1.20.0
Compiling rayon-core v1.13.0
Compiling nalgebra-macros v0.1.0
Compiling rand_distr v0.4.3
Compiling crossbeam-deque v0.8.6
Compiling simba v0.6.0
Compiling lazy_static v1.5.0
Compiling extendr-api v0.9.0
Compiling extendr-macros v0.9.0
Compiling nalgebra v0.29.0
Compiling simba v0.9.1
Compiling nalgebra-macros v0.2.2
Compiling readonly v0.2.13
Compiling either v1.15.0
Compiling once_cell v1.21.4
Compiling rayon v1.12.0
Compiling statrs v0.16.1
Compiling nalgebra v0.33.3
Compiling smoothbp v0.1.0 (/data/gannet/ripley/R/packages/tests-devel/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 -lrt -lpthread -lR -lgcc_s -lutil -lrt -lpthread -lm -ldl -lc
warning: `smoothbp` (lib) generated 2 warnings
Finished `release` profile [optimized] target(s) in 22m 46s
# export CARGO_HOME="/data/gannet/ripley/R/packages/tests-devel/smoothbp/src/.cargo" && \
# export PATH="/data/gannet/ripley/bin:/usr/local/bin:/usr/local/texbin:/usr/sbin:/usr/lib64/qt-3.3/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/lib64/openmpi/bin:/data/gannet/ripley/.cargo/bin" && \
# cargo run -j 2 --offline --release --bin document --manifest-path=./rust/Cargo.toml --target-dir ./rust/target
# Always clean up CARGOTMP
rm -Rf /data/gannet/ripley/R/packages/tests-devel/smoothbp/src/.cargo;
gcc -shared -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -fpic -L/usr/local/lib64 -o smoothbp.so entrypoint.o -L./rust/target/release -lsmoothbp
rm -Rf /data/gannet/ripley/R/packages/tests-devel/smoothbp/src/.cargo /data/gannet/ripley/R/packages/tests-devel/smoothbp/src/vendor ./rust/target
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/smoothbp/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/smoothbp/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/smoothbp/src'
installing to /data/gannet/ripley/R/packages/tests-devel/smoothbp.Rcheck/00LOCK-smoothbp/00new/smoothbp/libs
** 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)