diff --git a/.bazelversion b/.bazelversion new file mode 100644 index 0000000..deeb3d6 --- /dev/null +++ b/.bazelversion @@ -0,0 +1 @@ +9.2.0 diff --git a/.bcr/metadata.template.json b/.bcr/metadata.template.json new file mode 100644 index 0000000..d3aa507 --- /dev/null +++ b/.bcr/metadata.template.json @@ -0,0 +1,7 @@ +{ + "homepage": "https://github.com/jhurliman/best-cpp", + "maintainers": [{"github": "jhurliman", "github_user_id": 195374}], + "repository": ["github:jhurliman/best-cpp"], + "versions": [], + "yanked_versions": {} +} diff --git a/.bcr/presubmit.yml b/.bcr/presubmit.yml new file mode 100644 index 0000000..af51592 --- /dev/null +++ b/.bcr/presubmit.yml @@ -0,0 +1,11 @@ +matrix: + platform: [ubuntu2404, macos_arm64] + bazel: ["9.*"] +tasks: + verify_targets: + name: Verify library and regression tests + platform: ${{ platform }} + bazel: ${{ bazel }} + build_flags: ["--cxxopt=-std=c++17"] + build_targets: ["@best_cpp//:best_cpp"] + test_targets: ["@best_cpp//:regression"] diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 2f97691..f5a07eb 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -12,3 +12,30 @@ jobs: - uses: actions/checkout@v4 - run: c++ -std=c++17 -O2 -Wall -Wextra -Wpedantic -pthread -Ibest tests/regression.cpp -o regression && ./regression - run: c++ -std=c++17 -O1 -g -fsanitize=address,undefined -fno-omit-frame-pointer -pthread -Ibest tests/regression.cpp -o sanitized && ./sanitized + + cmake: + strategy: + matrix: + os: [ubuntu-latest, windows-latest, macos-latest] + runs-on: ${{ matrix.os }} + steps: + - uses: actions/checkout@v4 + - run: cmake -S . -B build -DBEST_CPP_BUILD_TESTS=ON -DBEST_CPP_BUILD_CLI=ON -DBEST_CPP_BUILD_BENCHMARKS=ON -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX=${{ github.workspace }}/install + - run: cmake --build build --config Release --parallel 4 + - run: ctest --test-dir build -C Release --output-on-failure + - run: cmake --install build --config Release + - run: cmake -S examples/cmake-consumer -B consumer-build -DCMAKE_PREFIX_PATH=${{ github.workspace }}/install + - run: cmake --build consumer-build --config Release + - run: ctest --test-dir consumer-build -C Release --output-on-failure + bazel: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + - uses: actions/setup-node@v4 + with: + node-version: 24 + - run: npm install --global @bazel/bazelisk@1.28.1 + - run: bazelisk test //:regression --cxxopt=-std=c++17 + - run: bazelisk test //:consumer --cxxopt=-std=c++17 + working-directory: examples/bazel-consumer + - run: BAZEL=bazelisk python3 tools/test_bcr.py diff --git a/.gitignore b/.gitignore index f55635e..ac9908b 100644 --- a/.gitignore +++ b/.gitignore @@ -1,4 +1,8 @@ build*/ install/ -bazel-* +/bazel-* +/examples/bazel-consumer/bazel-* .DS_Store +__pycache__/ +regression +sanitized diff --git a/BUILD.bazel b/BUILD.bazel new file mode 100644 index 0000000..f988339 --- /dev/null +++ b/BUILD.bazel @@ -0,0 +1,12 @@ +load("@rules_cc//cc:cc_library.bzl", "cc_library") +load("@rules_cc//cc:cc_binary.bzl", "cc_binary") +load("@rules_cc//cc:cc_test.bzl", "cc_test") +cc_library( + name = "best_cpp", + hdrs = glob(["best/*.hpp", "best/*.inl"]), + strip_include_prefix = "best", + visibility = ["//visibility:public"], +) +cc_test(name = "regression", srcs = ["tests/regression.cpp"], deps = [":best_cpp"]) +cc_binary(name = "best", srcs = ["best/main.cpp"], deps = [":best_cpp"], tags = ["manual"]) +cc_binary(name = "benchmark", srcs = ["bench/sampler.cpp"], deps = [":best_cpp"], tags = ["manual"]) diff --git a/CHANGELOG.md b/CHANGELOG.md index fe71088..4ef09ec 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,6 +1,6 @@ # Changelog -## Unreleased +## 1.0.0 (prepared, not published) - Replace speculative parallel proposals with sequential adaptive Metropolis-within-Gibbs. Remove shared random-generator races and proposal-selection bias. Remove the thread-count argument from `AMWG::Init`; callers now pass only the starting state and log-posterior callback. - `Sample(n)` records exactly n completed sweeps; `Burn(n)` advances without retaining samples. Adaptation tracks sweeps independently of chain storage. Reinitialization resets the seeded generator and adaptation. Sampling no longer prints progress. @@ -11,3 +11,6 @@ - Compute population standard deviation without a temporary allocation. Add numerical, lifecycle, seeded-distribution and independent-chain regression checks. These corrections change seeded sequences, inference results and invalid-input behavior. Old results should be recomputed. Reproducibility is within the same implementation and standard library; C++ random-distribution algorithms are not portable bit-for-bit. + +- Add CMake install/export targets, Bzlmod library and renamed-repository consumers, archive-based registry tests, standalone header checks, optional CLI/benchmark targets and Linux/macOS/Windows CI. +- Clamp initial group scales to both prior bounds, including highly imbalanced group sizes. diff --git a/CMakeLists.txt b/CMakeLists.txt new file mode 100644 index 0000000..f07c755 --- /dev/null +++ b/CMakeLists.txt @@ -0,0 +1,48 @@ +cmake_minimum_required(VERSION 3.16) +project(best_cpp VERSION 1.0.0 LANGUAGES CXX) +include(GNUInstallDirs) +include(CMakePackageConfigHelpers) +add_library(best_cpp INTERFACE) +add_library(best_cpp::best_cpp ALIAS best_cpp) +target_compile_features(best_cpp INTERFACE cxx_std_17) +target_include_directories(best_cpp INTERFACE + $ + $) +option(BEST_CPP_BUILD_TESTS "Build regression tests" OFF) +option(BEST_CPP_BUILD_CLI "Build file comparison example" OFF) +option(BEST_CPP_BUILD_BENCHMARKS "Build sampler benchmark" OFF) +if(BEST_CPP_BUILD_TESTS) + enable_testing() + find_package(Threads REQUIRED) + add_executable(best-regression tests/regression.cpp) + target_link_libraries(best-regression PRIVATE best_cpp::best_cpp Threads::Threads) + add_test(NAME regression COMMAND best-regression) + foreach(header amwg.hpp best.hpp stats.hpp version.hpp) + string(REPLACE "." "_" target ${header}) + file(WRITE ${CMAKE_CURRENT_BINARY_DIR}/${target}.cpp "#include <${header}>\n") + add_library(header_${target} OBJECT ${CMAKE_CURRENT_BINARY_DIR}/${target}.cpp) + target_link_libraries(header_${target} PRIVATE best_cpp::best_cpp) + endforeach() +endif() +if(BEST_CPP_BUILD_CLI) + add_executable(best best/main.cpp) + target_link_libraries(best PRIVATE best_cpp::best_cpp) + if(BEST_CPP_BUILD_TESTS) + add_test(NAME cli-errors COMMAND ${CMAKE_COMMAND} -DCLI=$ -P ${CMAKE_CURRENT_SOURCE_DIR}/tests/cli-errors.cmake) + endif() +endif() +if(BEST_CPP_BUILD_BENCHMARKS) + add_executable(best-benchmark bench/sampler.cpp) + target_link_libraries(best-benchmark PRIVATE best_cpp::best_cpp) +endif() +install(TARGETS best_cpp EXPORT best_cppTargets) +install(DIRECTORY best/ DESTINATION ${CMAKE_INSTALL_INCLUDEDIR}/best_cpp FILES_MATCHING PATTERN "*.hpp" PATTERN "*.inl") +install(FILES LICENSE DESTINATION ${CMAKE_INSTALL_DATADIR}/licenses/best_cpp) +install(EXPORT best_cppTargets NAMESPACE best_cpp:: DESTINATION ${CMAKE_INSTALL_LIBDIR}/cmake/best_cpp) +configure_package_config_file(cmake/best_cppConfig.cmake.in ${CMAKE_CURRENT_BINARY_DIR}/best_cppConfig.cmake INSTALL_DESTINATION ${CMAKE_INSTALL_LIBDIR}/cmake/best_cpp) +write_basic_package_version_file(${CMAKE_CURRENT_BINARY_DIR}/best_cppConfigVersion.cmake VERSION ${PROJECT_VERSION} COMPATIBILITY SameMajorVersion ARCH_INDEPENDENT) +install(FILES ${CMAKE_CURRENT_BINARY_DIR}/best_cppConfig.cmake ${CMAKE_CURRENT_BINARY_DIR}/best_cppConfigVersion.cmake DESTINATION ${CMAKE_INSTALL_LIBDIR}/cmake/best_cpp) + +if(BEST_CPP_BUILD_TESTS) + add_test(NAME architecture-independent-version COMMAND ${CMAKE_COMMAND} -DVERSION_FILE=${CMAKE_CURRENT_BINARY_DIR}/best_cppConfigVersion.cmake -P ${CMAKE_CURRENT_SOURCE_DIR}/tests/architecture-version.cmake) +endif() diff --git a/MODULE.bazel b/MODULE.bazel new file mode 100644 index 0000000..cabd506 --- /dev/null +++ b/MODULE.bazel @@ -0,0 +1,2 @@ +module(name = "best_cpp", version = 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b/PERFORMANCE.md @@ -0,0 +1,7 @@ +# Performance checks + +A seven-run comparison on macOS arm64 with AppleClang 21, `-O2`, measured 10,000 sweeps of a one-dimensional standard-normal posterior, batch size 50, seed 42, original implementation worker count explicitly 1. The original f69609a sampler took a median **39.93 ms**; the sequential implementation took **0.657 ms**, roughly **61× faster for this small-posterior workload**. Timing included initialization; original progress output was redirected to an in-memory stream. This is not a general speedup or effective-sample-size claim. The algorithms and random sequences differ, and the original multiworker algorithm is not a valid baseline for inference quality. + +`bench/sampler.cpp` provides a repeatable current-version seven-run benchmark. Run a Release build; debug/optimization settings change timing substantially. The benchmark retains and consumes results to prevent elimination. + +The BEST likelihood also computes the Student-t normalization once per group instead of calling gamma functions for every observation. Standard deviation uses a scaled accumulation without an intermediate vector. Larger-data throughput and multi-chain parallel scaling have not been quantified here. diff --git a/README.md b/README.md index a957d9a..2b497ef 100644 --- a/README.md +++ b/README.md @@ -1,2 +1,66 @@ # best-cpp -C++ implementation of "Bayesian estimation supersedes the t test" + +Header-only C++17 implementation of a two-group Student-t Bayesian model inspired by [Bayesian estimation supersedes the t test](https://www.krigolsonteaching.com/uploads/4/3/8/4/43848243/kruschke2012jepg.pdf). MIT licensed; no third-party C++ dependencies. + +```cpp +#include +#include + +std::vector a{1.8, 2.0, 2.2, 1.9, 2.1}; +std::vector b{2.8, 3.0, 3.2, 2.9, 3.1}; +BEST> model(a, b, 50, 42); // batch size, seed +model.Burn(5000); +model.Sample(20000); +std::pair interval; +double difference; +model.ComputeStats(interval, difference); // a mean minus b mean +``` + +The run lengths above are illustrative. Examine multiple independently seeded chains and convergence/effective sample size before interpreting results; these diagnostics are not implemented here. A fixed seed is reproducible with the same implementation and C++ standard library, not across arbitrary toolchains. Small or weakly identified data can produce very broad posteriors. + +## Bazel monorepos + +The public target is `@bayes//:best_cpp`. Until a release is registered in BCR, use a pinned Git commit override in the root `MODULE.bazel`: + +```starlark +bazel_dep(name = "best_cpp", version = "1.0.0", repo_name = "bayes") +git_override( + module_name = "best_cpp", + remote = "https://github.com/jhurliman/best-cpp.git", + commit = "", +) +``` + +Alternatively use `local_path_override(module_name = "best_cpp", path = "/path/to/best-cpp")`. The runnable [consumer example](examples/bazel-consumer) tests this with a renamed repository. Set C++17 or later in the consuming toolchain (`--cxxopt=-std=c++17` for GCC/Clang). No repository-name assumptions or third-party numerical dependencies are imposed. Bazel 9.2 is tested; the module uses rules_cc 0.2.22. After BCR registration, the override can be removed. This prepared version is **not registered or released yet**. + +## CMake + +```sh +cmake -S . -B build -DCMAKE_INSTALL_PREFIX=/path/to/prefix +cmake --install build +``` + +Consumers use `find_package(best_cpp 1 CONFIG REQUIRED)` and `target_link_libraries(app PRIVATE best_cpp::best_cpp)`, with the install prefix in `CMAKE_PREFIX_PATH`. `add_subdirectory` exposes the same target. No global compiler flags are changed and tests/examples are off by default. The target preserves `#include `, `` and ``; installed files live under `include/best_cpp`. Raw-header consumers can add the source `best/` directory to their include path. + +## Sampling and model contract + +- `AMWG::Init(start, logPosterior)` accepts a finite starting state/log density. The callback returns a **log** density. `-infinity`, NaN and positive infinity proposals are rejected. Exceptions propagate; a partially completed sweep can have advanced state but is not recorded. +- `Sample(n)` appends exactly n completed sweeps. `NextSample()` appends one and returns N proposals. `Burn(n)` advances without modifying stored draws. Repeated calls preserve adaptation; `Init` resets it and reseeds the generator. +- Updates are sequential Metropolis-within-Gibbs with diminishing batch adaptation toward 0.44 acceptance. The thread-count argument has been removed. Run separate instances with separate seeds for parallel chains. A single instance is not safe for concurrent mutation. +- BEST owns its observations and is not copyable/movable. Groups must be nonempty and finite with positive pooled population variance; extreme scales whose prior bounds cannot be represented are rejected. Constant individual groups are allowed when pooled variance is positive. +- Parameters are `(mu1, mu2, sigma1, sigma2, nu)`. For compatibility with the historical implementation, mean priors have pooled mean and **pooled SD × 1,000,000**; sigma priors are uniform from pooled SD / 1,000 to pooled SD × 1,000; `nu-1` is exponential with mean 29. The broad mean scale is a library choice, not a claim of exact equivalence to other BEST software. +- `chain()` exposes draws for external diagnostics; `LogPosterior(params)` supports inspection. `ComputeStats` requires samples and returns the mean difference and shortest interval covering ceil(0.95*n) empirical draws. This is a shortest contiguous sample interval, not a general multimodal highest-density region. +- Statistics use floating-point containers; `stdev` is the population SD. Invalid domains/empty data throw exceptions. Extreme-tail densities can round to zero; use log-density helpers for inference. + +## Development + +```sh +cmake -S . -B build -DBEST_CPP_BUILD_TESTS=ON -DBEST_CPP_BUILD_CLI=ON -DBEST_CPP_BUILD_BENCHMARKS=ON -DCMAKE_BUILD_TYPE=Release +cmake --build build --parallel +ctest --test-dir build --output-on-failure +./build/best-benchmark +bazelisk test //:regression --cxxopt=-std=c++17 +BAZEL=bazelisk python3 tools/test_bcr.py +``` + +The CLI accepts two whitespace-separated numeric files and reports malformed/missing input as errors. Existing IDE project files are historical; CMake is the supported portable build path. See [CHANGELOG.md](CHANGELOG.md), [PERFORMANCE.md](PERFORMANCE.md) and [RELEASING.md](RELEASING.md). diff --git a/RELEASING.md b/RELEASING.md new file mode 100644 index 0000000..5b4611e --- /dev/null +++ b/RELEASING.md @@ -0,0 +1,11 @@ +# Preparing the first versioned release + +Version 1.0.0 is prepared, not published. No prior release tags were present during this audit. This release changes historical sampling results, seeded sequences, threading behavior and error handling; read CHANGELOG.md before upgrading. Recompute previous inference results. + +1. Merge the sampler-correctness PR, then its packaging follow-up. Require Linux/macOS regression and sanitizer jobs, Windows/Linux/macOS CMake consumers, and the Bazel archive-consumer job to pass. +2. Verify `CMakeLists.txt`, `MODULE.bazel`, `best/version.hpp`, the consumer module and changelog agree on 1.0.0. Run the commands in README.md from the reviewed commit. The archive test uses committed HEAD, so commit release files before running it. +3. Create tag `v1.0.0` on the reviewed commit and publish release notes describing compatibility changes and convergence limitations. +4. Download the exact public GitHub tag archive; its compressed bytes may differ from `git archive`. Generate a candidate BCR entry with `python3 tools/prepare_bcr.py best-cpp-1.0.0.tar.gz --output /path/to/bazel-central-registry`. +5. Review the generated `modules/best_cpp` files and submit a separate BCR PR. The tool preserves existing registry configuration and prior metadata versions. Until BCR accepts it, consumers need a pinned commit or local-path override. + +`tools/test_bcr.py` creates an isolated temporary registry, serves an integrity-checked source archive and builds a renamed independent consumer without local or Git overrides. It does not publish anything. No Conan recipe is needed for the requested CMake/Bazel integration; there was no existing Conan package in this repository. diff --git a/bench/sampler.cpp b/bench/sampler.cpp new file mode 100644 index 0000000..6438545 --- /dev/null +++ b/bench/sampler.cpp @@ -0,0 +1,18 @@ +#include +#include +#include +#include +#include +int main() { + std::vector timings; + double result=0; + for(int run=0;run<7;++run) { + AMWG sampler(50,42); + sampler.Init({{0}},[](const std::array& p){return -p[0]*p[0]/2;}); + auto start=std::chrono::steady_clock::now();sampler.Sample(10000); + timings.push_back(std::chrono::duration(std::chrono::steady_clock::now()-start).count()); + result+=sampler.chain().back()[0]; + } + std::sort(timings.begin(),timings.end()); + std::cout<<"10000 sweeps median_ms="< readFile(const char* filename) { std::ifstream input(filename); if(!input) throw std::runtime_error(std::string("cannot open ")+filename); std::vector values; - double value; - while(input>>value) values.push_back(value); + std::string token; + while(input>>token) { + size_t parsed=0; + double value=std::stod(token,&parsed); + if(parsed!=token.size() || !std::isfinite(value)) + throw std::runtime_error(std::string("invalid numeric data in ")+filename); + values.push_back(value); + } if(!input.eof()) throw std::runtime_error(std::string("invalid numeric data in ")+filename); if(values.empty()) throw std::runtime_error(std::string("empty input: ")+filename); return values; diff --git a/best/version.hpp b/best/version.hpp new file mode 100644 index 0000000..150f0b0 --- /dev/null +++ b/best/version.hpp @@ -0,0 +1,5 @@ +#pragma once +#define BEST_CPP_VERSION_MAJOR 1 +#define BEST_CPP_VERSION_MINOR 0 +#define BEST_CPP_VERSION_PATCH 0 +#define BEST_CPP_VERSION "1.0.0" diff --git a/cmake/best_cppConfig.cmake.in b/cmake/best_cppConfig.cmake.in new file mode 100644 index 0000000..076526e --- /dev/null +++ b/cmake/best_cppConfig.cmake.in @@ -0,0 +1,3 @@ +@PACKAGE_INIT@ +include("${CMAKE_CURRENT_LIST_DIR}/best_cppTargets.cmake") +check_required_components(best_cpp) diff --git a/examples/bazel-consumer/.bazelversion b/examples/bazel-consumer/.bazelversion new file mode 100644 index 0000000..deeb3d6 --- /dev/null +++ b/examples/bazel-consumer/.bazelversion @@ -0,0 +1 @@ +9.2.0 diff --git a/examples/bazel-consumer/BUILD.bazel b/examples/bazel-consumer/BUILD.bazel new file mode 100644 index 0000000..80f294c --- /dev/null +++ b/examples/bazel-consumer/BUILD.bazel @@ -0,0 +1,2 @@ +load("@rules_cc//cc:cc_test.bzl", "cc_test") +cc_test(name = "consumer", srcs = ["main.cpp"], deps = ["@bayes//:best_cpp"]) diff --git a/examples/bazel-consumer/MODULE.bazel b/examples/bazel-consumer/MODULE.bazel new file mode 100644 index 0000000..30c624c --- /dev/null +++ b/examples/bazel-consumer/MODULE.bazel @@ -0,0 +1,4 @@ +module(name = "consumer") +bazel_dep(name = "rules_cc", version = "0.2.22") +bazel_dep(name = "best_cpp", version = "1.0.0", repo_name = "bayes") 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0000000..ad1a184 --- /dev/null +++ b/examples/bazel-consumer/main.cpp @@ -0,0 +1,11 @@ +#include +#include +#include +int main() { + static_assert(BEST_CPP_VERSION_MAJOR == 1, "version"); + BEST> model({1,2,3},{3,4,5},50,42); + model.Burn(10);model.Sample(20); + std::pair hdi;double mean; + model.ComputeStats(hdi,mean); + return model.chain().size()==20 && std::isfinite(mean) ? 0 : 1; +} diff --git a/examples/cmake-consumer/CMakeLists.txt b/examples/cmake-consumer/CMakeLists.txt new file mode 100644 index 0000000..7d8870b --- /dev/null +++ b/examples/cmake-consumer/CMakeLists.txt @@ -0,0 +1,7 @@ +cmake_minimum_required(VERSION 3.16) +project(consumer LANGUAGES CXX) +find_package(best_cpp 1 CONFIG REQUIRED) +add_executable(consumer main.cpp) +target_link_libraries(consumer PRIVATE best_cpp::best_cpp) +enable_testing() +add_test(NAME installed-consumer COMMAND consumer) diff --git a/examples/cmake-consumer/main.cpp b/examples/cmake-consumer/main.cpp new file mode 100644 index 0000000..ad1a184 --- /dev/null +++ b/examples/cmake-consumer/main.cpp @@ -0,0 +1,11 @@ +#include +#include +#include +int main() { + static_assert(BEST_CPP_VERSION_MAJOR == 1, "version"); + BEST> model({1,2,3},{3,4,5},50,42); + model.Burn(10);model.Sample(20); + std::pair hdi;double mean; + model.ComputeStats(hdi,mean); + return model.chain().size()==20 && std::isfinite(mean) ? 0 : 1; +} diff --git a/tests/architecture-version.cmake b/tests/architecture-version.cmake new file mode 100644 index 0000000..bebad32 --- /dev/null +++ b/tests/architecture-version.cmake @@ -0,0 +1,13 @@ +# A header-only package must accept either consumer pointer size. This checks +# generated version selection; it does not pretend to compile a 32-bit binary. +foreach(pointer_size 4 8) + set(CMAKE_SIZEOF_VOID_P ${pointer_size}) + set(PACKAGE_FIND_VERSION "1.0.0") + set(PACKAGE_FIND_VERSION_MAJOR 1) + unset(PACKAGE_VERSION_UNSUITABLE) + unset(PACKAGE_VERSION_COMPATIBLE) + include("${VERSION_FILE}") + if(PACKAGE_VERSION_UNSUITABLE OR NOT PACKAGE_VERSION_COMPATIBLE) + message(FATAL_ERROR "Header package rejected pointer size ${pointer_size}") + endif() +endforeach() diff --git a/tests/cli-errors.cmake b/tests/cli-errors.cmake new file mode 100644 index 0000000..e792b47 --- /dev/null +++ b/tests/cli-errors.cmake @@ -0,0 +1,11 @@ +foreach(data "" "1 2 1e" "1 2 nan" "1 2 3junk") + file(WRITE "${CMAKE_CURRENT_BINARY_DIR}/invalid.txt" "${data}") + execute_process(COMMAND "${CLI}" "${CMAKE_CURRENT_BINARY_DIR}/invalid.txt" "${CMAKE_CURRENT_BINARY_DIR}/invalid.txt" RESULT_VARIABLE result OUTPUT_QUIET ERROR_QUIET) + if(result EQUAL 0) + message(FATAL_ERROR "CLI accepted invalid input: ${data}") + endif() +endforeach() +execute_process(COMMAND "${CLI}" "${CMAKE_CURRENT_BINARY_DIR}/nonexistent-input.txt" "${CMAKE_CURRENT_BINARY_DIR}/nonexistent-input.txt" RESULT_VARIABLE result OUTPUT_QUIET ERROR_QUIET) +if(result EQUAL 0) + message(FATAL_ERROR "CLI accepted missing files") +endif() diff --git a/tests/regression.cpp b/tests/regression.cpp index a4ac942..eb01187 100644 --- a/tests/regression.cpp +++ b/tests/regression.cpp @@ -63,6 +63,8 @@ int main() { try { V outcomes(2); std::thread t1([&]{S n;n.Init({{0}},normal);n.Sample(100);outcomes[0]=n.state()[0];}); std::thread t2([&]{S n;n.Init({{0}},normal);n.Sample(100);outcomes[1]=n.state()[0];});t1.join();t2.join();check(outcomes[0]==outcomes[1],"independent chains"); rejects([]{BEST m(V{},V{1});}); rejects([]{BEST m(V{1},V{1});}); + { BEST imbalanced(V{-1,1},V(2000001,0)); + check(imbalanced.chain().empty(),"imbalanced groups initialize inside prior support"); } BEST model(V{1,2,3},V{3,4,5},50,42); std::pair hdi;double mean; rejects([&]{model.ComputeStats(hdi,mean);}); diff --git a/tools/prepare_bcr.py b/tools/prepare_bcr.py new file mode 100644 index 0000000..403fb66 --- /dev/null +++ b/tools/prepare_bcr.py @@ -0,0 +1,57 @@ +"""Generate a registry entry from the exact source archive being released.""" +import argparse +import base64 +import hashlib +import json +from pathlib import Path +import re +import tarfile + + +def prepare(archive, output, url=None): + root = Path(__file__).resolve().parents[1] + with tarfile.open(archive, 'r:gz') as tar: + modules = [m for m in tar.getmembers() if m.name.count('/') == 1 and m.name.endswith('/MODULE.bazel')] + if len(modules) != 1 or not modules[0].isfile() or modules[0].size > 65536: + raise ValueError('archive must contain one top-level MODULE.bazel') + module = tar.extractfile(modules[0]).read() + text = module.decode('utf-8') + name = re.search(r'\bname\s*=\s*"([a-z0-9_]+)"', text).group(1) + version = re.search(r'\bversion\s*=\s*"([0-9]+\.[0-9]+\.[0-9]+)"', text).group(1) + if name != 'best_cpp': + raise ValueError('unexpected module name') + prefix = modules[0].name.split('/')[0] + if prefix != 'best-cpp-' + version: + raise ValueError('archive prefix must match the module version') + for required in ['BUILD.bazel', 'LICENSE', 'best/best.hpp']: + if not tar.getmember(prefix + '/' + required).isfile(): + raise ValueError('missing release file: ' + required) + directory = Path(output) / 'modules' / name + target = directory / version + target.mkdir(parents=True, exist_ok=True) + metadata_path = directory / 'metadata.json' + metadata = json.loads(metadata_path.read_text()) if metadata_path.exists() else json.loads((root / '.bcr/metadata.template.json').read_text()) + if version not in metadata['versions']: + metadata['versions'].append(version) + metadata_path.write_text(json.dumps(metadata, indent=2) + '\n') + source = { + 'url': url or f'https://github.com/jhurliman/best-cpp/archive/refs/tags/v{version}.tar.gz', + 'integrity': 'sha256-' + base64.b64encode(hashlib.sha256(Path(archive).read_bytes()).digest()).decode(), + 'strip_prefix': prefix, + } + (target / 'source.json').write_text(json.dumps(source, indent=2) + '\n') + (target / 'MODULE.bazel').write_bytes(module) + (target / 'presubmit.yml').write_bytes((root / '.bcr/presubmit.yml').read_bytes()) + descriptor = Path(output) / 'bazel_registry.json' + if not descriptor.exists(): + descriptor.write_text('{}\n') + return version + + +if __name__ == '__main__': + parser = argparse.ArgumentParser(description=__doc__) + parser.add_argument('archive', type=Path) + parser.add_argument('--output', type=Path, required=True) + parser.add_argument('--url') + args = parser.parse_args() + print(prepare(args.archive, args.output, args.url)) diff --git a/tools/test_bcr.py b/tools/test_bcr.py new file mode 100644 index 0000000..2674b1f --- /dev/null +++ b/tools/test_bcr.py @@ -0,0 +1,41 @@ +"""Test consumption through a generated registry, with no local_path_override.""" +from functools import partial +from http.server import SimpleHTTPRequestHandler, ThreadingHTTPServer +import os +from pathlib import Path +import re +import subprocess +import tempfile +from threading import Thread +from prepare_bcr import prepare + +root = Path(__file__).resolve().parents[1] +version = re.search(r'version\s*=\s*"([^"]+)"', (root / 'MODULE.bazel').read_text()).group(1) +with tempfile.TemporaryDirectory(prefix='best-cpp-bcr-') as temp: + base = Path(temp) + archive = base / 'source.tar.gz' + subprocess.run(['git','archive','--format=tar.gz',f'--prefix=best-cpp-{version}/',f'--output={archive}','HEAD'],cwd=root,check=True) + server = ThreadingHTTPServer(('127.0.0.1',0),partial(SimpleHTTPRequestHandler,directory=temp)) + thread = Thread(target=server.serve_forever,daemon=True) + thread.start() + try: + registry = base / 'registry' + actual = prepare(archive,registry,f'http://127.0.0.1:{server.server_port}/source.tar.gz') + assert actual == version + descriptor = registry / 'bazel_registry.json' + assert descriptor.read_text() == '{}\n' + existing = '{"mirrors": []}\n' + descriptor.write_text(existing) + prepare(archive, registry, f'http://127.0.0.1:{server.server_port}/source.tar.gz') + assert descriptor.read_text() == existing, 'existing registry configuration must survive' + + consumer = base / 'consumer' + consumer.mkdir() + (consumer/'MODULE.bazel').write_text(f'module(name="registry_consumer")\nbazel_dep(name="best_cpp",version="{version}",repo_name="bayes")\nbazel_dep(name="rules_cc",version="0.2.22")\n') + (consumer/'BUILD.bazel').write_text('load("@rules_cc//cc:cc_test.bzl","cc_test")\ncc_test(name="consumer",srcs=["main.cpp"],deps=["@bayes//:best_cpp"])\n') + (consumer/'main.cpp').write_bytes((root/'examples/cmake-consumer/main.cpp').read_bytes()) + (consumer/'.bazelversion').write_bytes((root/'.bazelversion').read_bytes()) + subprocess.run([os.environ.get('BAZEL','bazel'),'--batch','test','//:consumer','--cxxopt=-std=c++17',f'--registry={registry.as_uri()}','--registry=https://bcr.bazel.build'],cwd=consumer,check=True) + finally: + server.shutdown() + server.server_close()