* 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, | ^^^^^^^^ 70 | pub p_om: Vec, | ^^^^ 71 | pub p_rho: Vec, | ^^^^^ | = 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)