From fc9cc9e73cf09c1c97dfe945ecd003edc9af2a43 Mon Sep 17 00:00:00 2001 From: ShabiShett07 Date: Sat, 18 Jan 2025 15:21:44 +0530 Subject: [PATCH 01/13] feat: add C implementation /stats/base/dists/gamma/logpdf --- .../stats/base/dists/gamma/logpdf/README.md | 98 ++++++++ .../logpdf/benchmark/benchmark.native.js | 74 ++++++ .../dists/gamma/logpdf/benchmark/c/Makefile | 146 +++++++++++ .../gamma/logpdf/benchmark/c/benchmark.c | 143 +++++++++++ .../stats/base/dists/gamma/logpdf/binding.gyp | 170 +++++++++++++ .../dists/gamma/logpdf/examples/c/Makefile | 146 +++++++++++ .../dists/gamma/logpdf/examples/c/example.c | 42 ++++ .../base/dists/gamma/logpdf/include.gypi | 53 ++++ .../stdlib/stats/base/dists/gamma/logpdf.h | 38 +++ .../base/dists/gamma/logpdf/lib/native.js | 77 ++++++ .../base/dists/gamma/logpdf/manifest.json | 134 ++++++++++ .../base/dists/gamma/logpdf/package.json | 3 + .../base/dists/gamma/logpdf/src/Makefile | 70 ++++++ .../stats/base/dists/gamma/logpdf/src/addon.c | 23 ++ .../stats/base/dists/gamma/logpdf/src/main.c | 197 +++++++++++++++ .../dists/gamma/logpdf/test/test.native.js | 232 ++++++++++++++++++ 16 files changed, 1646 insertions(+) create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/Makefile create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/binding.gyp create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/Makefile create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include.gypi create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include/stdlib/stats/base/dists/gamma/logpdf.h create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/lib/native.js create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/manifest.json create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/Makefile create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/addon.c create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c create mode 100644 lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md index 6f19ff51b1ce..389bc8bcdd1f 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md @@ -155,6 +155,104 @@ for ( i = 0; i < 10; i++ ) { + + +* * * + +
+ +## C APIs + + + +
+ +
+ + + + + +
+ +### Usage + +```c +#include "stdlib/stats/base/dists/gamma/logpdf.h" +``` + +#### stdlib_base_dists_gamma_logpdf( x, alpha, beta ) + +Evaluates the logarithm of the probability density function (PDF) for a gamma distribution with shape parameter `alpha` and rate parameter `beta` at a value `x`. + +```c +double out = stdlib_base_dists_gamma_logpdf( 2.0, 0.5, 1.0 ); +// returns ~-2.919 +``` + +The function accepts the following arguments: + +- **x**: `[in] double` input value. +- **mu**: `[in] double` shape parameter. +- **b**: `[in] double` rate parameter. + +```c +double stdlib_base_dists_gamma_logpdf( const double x, const double alpha, const double beta ); +``` + +
+ + + + + +
+ +
+ + + + + +
+ +### Examples + +```c +#include "stdlib/stats/base/dists/gamma/logpdf.h" +#include +#include + +static double random_uniform( const double min, const double max ) { + double v = (double)rand() / ( (double)RAND_MAX + 1.0 ); + return min + ( v*(max-min) ); +} + +int main( void ) { + double x; + double alpha; + double beta; + double y; + int i; + + for ( i = 0; i < 25; i++ ) { + x = random_uniform( 0.0, 10.0 ) - 5.0; + alpha = random_uniform( 0.0, 20.0 ); + beta = random_uniform( 0.0, 20.0 ); + y = stdlib_base_dists_gamma_logpdf( x, alpha, beta ); + printf( "x: %lf, alpha: %lf, beta: %lf, LogPdf(X;x,alpha,beta): %lf\n", x, alpha, beta, y ); + } +} +``` + +
+ + + +
+ + +
diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js new file mode 100644 index 000000000000..3c785b4951c2 --- /dev/null +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js @@ -0,0 +1,74 @@ +/** +* @license Apache-2.0 +* +* Copyright (c) 2024 The Stdlib Authors. +* +* Licensed under the Apache License, Version 2.0 (the "License"); +* you may not use this file except in compliance with the License. +* You may obtain a copy of the License at +* +* http://www.apache.org/licenses/LICENSE-2.0 +* +* Unless required by applicable law or agreed to in writing, software +* distributed under the License is distributed on an "AS IS" BASIS, +* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +* See the License for the specific language governing permissions and +* limitations under the License. +*/ + +'use strict'; + +// MODULES // + +var resolve = require( 'path' ).resolve; +var bench = require( '@stdlib/bench' ); +var Float64Array = require( '@stdlib/array/float64' ); +var tryRequire = require( '@stdlib/utils/try-require' ); +var randu = require( '@stdlib/random/base/randu' ); +var isnan = require( '@stdlib/math/base/assert/is-nan' ); +var EPS = require( '@stdlib/constants/float64/eps' ); +var pkg = require( './../package.json' ).name; + + +// VARIABLES // + +var logpdf = tryRequire( resolve( __dirname, './../lib/native.js' ) ); +var opts = { + 'skip': ( logpdf instanceof Error ) +}; + + +// MAIN // + +bench( pkg+'::native', opts, function benchmark( b ) { + var alpha; + var beta; + var len; + var x; + var y; + var i; + + len = 100; + x = new Float64Array( len ); + alpha = new Float64Array( len ); + beta = new Float64Array( len ); + for ( i = 0; i < len; i++ ) { + x[ i ] = ( randu()*100.0 ) + EPS; + alpha[ i ] = ( randu()*100.0 ) + EPS; + beta[ i ] = ( randu()*100.0 ) + EPS; + } + + b.tic(); + for ( i = 0; i < b.iterations; i++ ) { + y = logpdf( x[ i % len ], alpha[ i % len ], beta[ i % len ] ); + if ( isnan( y ) ) { + b.fail( 'should not return NaN' ); + } + } + b.toc(); + if ( isnan( y ) ) { + b.fail( 'should not return NaN' ); + } + b.pass( 'benchmark finished' ); + b.end(); +}); diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/Makefile b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/Makefile new file mode 100644 index 000000000000..f69e9da2b4d3 --- /dev/null +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/Makefile @@ -0,0 +1,146 @@ +#/ +# @license Apache-2.0 +# +# Copyright (c) 2024 The Stdlib Authors. +# +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at +# +# http://www.apache.org/licenses/LICENSE-2.0 +# +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. +#/ + +# VARIABLES # + +ifndef VERBOSE + QUIET := @ +else + QUIET := +endif + +# Determine the OS ([1][1], [2][2]). +# +# [1]: https://en.wikipedia.org/wiki/Uname#Examples +# [2]: http://stackoverflow.com/a/27776822/2225624 +OS ?= $(shell uname) +ifneq (, $(findstring MINGW,$(OS))) + OS := WINNT +else +ifneq (, $(findstring MSYS,$(OS))) + OS := WINNT +else +ifneq (, $(findstring CYGWIN,$(OS))) + OS := WINNT +else +ifneq (, $(findstring Windows_NT,$(OS))) + OS := WINNT +endif +endif +endif +endif + +# Define the program used for compiling C source files: +ifdef C_COMPILER + CC := $(C_COMPILER) +else + CC := gcc +endif + +# Define the command-line options when compiling C files: +CFLAGS ?= \ + -std=c99 \ + -O3 \ + -Wall \ + -pedantic + +# Determine whether to generate position independent code ([1][1], [2][2]). +# +# [1]: https://gcc.gnu.org/onlinedocs/gcc/Code-Gen-Options.html#Code-Gen-Options +# [2]: http://stackoverflow.com/questions/5311515/gcc-fpic-option +ifeq ($(OS), WINNT) + fPIC ?= +else + fPIC ?= -fPIC +endif + +# List of includes (e.g., `-I /foo/bar -I /beep/boop/include`): +INCLUDE ?= + +# List of source files: +SOURCE_FILES ?= + +# List of libraries (e.g., `-lopenblas -lpthread`): +LIBRARIES ?= + +# List of library paths (e.g., `-L /foo/bar -L /beep/boop`): +LIBPATH ?= + +# List of C targets: +c_targets := benchmark.out + + +# RULES # + +#/ +# Compiles source files. +# +# @param {string} [C_COMPILER] - C compiler (e.g., `gcc`) +# @param {string} [CFLAGS] - C compiler options +# @param {(string|void)} [fPIC] - compiler flag determining whether to generate position independent code (e.g., `-fPIC`) +# @param {string} [INCLUDE] - list of includes (e.g., `-I /foo/bar -I /beep/boop/include`) +# @param {string} [SOURCE_FILES] - list of source files +# @param {string} [LIBPATH] - list of library paths (e.g., `-L /foo/bar -L /beep/boop`) +# @param {string} [LIBRARIES] - list of libraries (e.g., `-lopenblas -lpthread`) +# +# @example +# make +# +# @example +# make all +#/ +all: $(c_targets) + +.PHONY: all + +#/ +# Compiles C source files. +# +# @private +# @param {string} CC - C compiler (e.g., `gcc`) +# @param {string} CFLAGS - C compiler options +# @param {(string|void)} fPIC - compiler flag determining whether to generate position independent code (e.g., `-fPIC`) +# @param {string} INCLUDE - list of includes (e.g., `-I /foo/bar`) +# @param {string} SOURCE_FILES - list of source files +# @param {string} LIBPATH - list of library paths (e.g., `-L /foo/bar`) +# @param {string} LIBRARIES - list of libraries (e.g., `-lopenblas`) +#/ +$(c_targets): %.out: %.c + $(QUIET) $(CC) $(CFLAGS) $(fPIC) $(INCLUDE) -o $@ $(SOURCE_FILES) $< $(LIBPATH) -lm $(LIBRARIES) + +#/ +# Runs compiled benchmarks. +# +# @example +# make run +#/ +run: $(c_targets) + $(QUIET) ./$< + +.PHONY: run + +#/ +# Removes generated files. +# +# @example +# make clean +#/ +clean: + $(QUIET) -rm -f *.o *.out + +.PHONY: clean diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c new file mode 100644 index 000000000000..66d2053aee03 --- /dev/null +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c @@ -0,0 +1,143 @@ +/** +* @license Apache-2.0 +* +* Copyright (c) 2024 The Stdlib Authors. +* +* Licensed under the Apache License, Version 2.0 (the "License"); +* you may not use this file except in compliance with the License. +* You may obtain a copy of the License at +* +* http://www.apache.org/licenses/LICENSE-2.0 +* +* Unless required by applicable law or agreed to in writing, software +* distributed under the License is distributed on an "AS IS" BASIS, +* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +* See the License for the specific language governing permissions and +* limitations under the License. +*/ + +#include "stdlib/stats/base/dists/gamma/logpdf.h" +#include "stdlib/constants/float64/eps.h" +#include +#include +#include +#include +#include + +#define NAME "gamma-logpdf" +#define ITERATIONS 1000000 +#define REPEATS 3 + +/** +* Prints the TAP version. +*/ +static void print_version( void ) { + printf( "TAP version 13\n" ); +} + +/** +* Prints the TAP summary. +* +* @param total total number of tests +* @param passing total number of passing tests +*/ +static void print_summary( int total, int passing ) { + printf( "#\n" ); + printf( "1..%d\n", total ); // TAP plan + printf( "# total %d\n", total ); + printf( "# pass %d\n", passing ); + printf( "#\n" ); + printf( "# ok\n" ); +} + +/** +* Prints benchmarks results. +* +* @param elapsed elapsed time in seconds +*/ +static void print_results( double elapsed ) { + double rate = (double)ITERATIONS / elapsed; + printf( " ---\n" ); + printf( " iterations: %d\n", ITERATIONS ); + printf( " elapsed: %0.9f\n", elapsed ); + printf( " rate: %0.9f\n", rate ); + printf( " ...\n" ); +} + +/** +* Returns a clock time. +* +* @return clock time +*/ +static double tic( void ) { + struct timeval now; + gettimeofday( &now, NULL ); + return (double)now.tv_sec + (double)now.tv_usec/1.0e6; +} + +/** +* Generates a random number on the interval [min,max). +* +* @param min minimum value (inclusive) +* @param max maximum value (exclusive) +* @return random number +*/ +static double random_uniform( const double min, const double max ) { + double v = (double)rand() / ( (double)RAND_MAX + 1.0 ); + return min + ( v*(max-min) ); +} + +/** +* Runs a benchmark. +* +* @return elapsed time in seconds +*/ +static double benchmark( void ) { + double elapsed; + double x[ 100 ]; + double alpha[ 100 ]; + double beta[ 100 ]; + double y; + double t; + int i; + + for ( i = 0; i < 100; i++ ) { + x[ i ] = random_uniform( 0.0, 100.0 ) + STDLIB_CONSTANT_FLOAT64_EPS; + alpha[ i ] = random_uniform( 0.0, 100.0 ) + STDLIB_CONSTANT_FLOAT64_EPS; + beta[ i ] = random_uniform( 0.0, 100.0 ) + STDLIB_CONSTANT_FLOAT64_EPS; + } + + t = tic(); + for ( i = 0; i < ITERATIONS; i++ ) { + y = stdlib_base_dists_gamma_logpdf( x[ i % 100 ], alpha[ i % 100 ], beta[ i % 100 ] ); + if ( y != y ) { + printf( "should not return NaN\n" ); + break; + } + } + elapsed = tic() - t; + if ( y != y ) { + printf( "should not return NaN\n" ); + } + return elapsed; +} + +/** +* Main execution sequence. +*/ +int main( void ) { + double elapsed; + int i; + + // Use the current time to seed the random number generator: + srand( time( NULL ) ); + + print_version(); + for ( i = 0; i < REPEATS; i++ ) { + printf( "# c::%s\n", NAME ); + elapsed = benchmark(); + print_results( elapsed ); + printf( "ok %d benchmark finished\n", i+1 ); + } + print_summary( REPEATS, REPEATS ); +} diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/binding.gyp b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/binding.gyp new file mode 100644 index 000000000000..ec3992233442 --- /dev/null +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/binding.gyp @@ -0,0 +1,170 @@ +# @license Apache-2.0 +# +# Copyright (c) 2024 The Stdlib Authors. +# +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at +# +# http://www.apache.org/licenses/LICENSE-2.0 +# +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. + +# A `.gyp` file for building a Node.js native add-on. +# +# [1]: https://gyp.gsrc.io/docs/InputFormatReference.md +# [2]: https://gyp.gsrc.io/docs/UserDocumentation.md +{ + # List of files to include in this file: + 'includes': [ + './include.gypi', + ], + + # Define variables to be used throughout the configuration for all targets: + 'variables': { + # Target name should match the add-on export name: + 'addon_target_name%': 'addon', + + # Set variables based on the host OS: + 'conditions': [ + [ + 'OS=="win"', + { + # Define the object file suffix: + 'obj': 'obj', + }, + { + # Define the object file suffix: + 'obj': 'o', + } + ], # end condition (OS=="win") + ], # end conditions + }, # end variables + + # Define compile targets: + 'targets': [ + + # Target to generate an add-on: + { + # The target name should match the add-on export name: + 'target_name': '<(addon_target_name)', + + # Define dependencies: + 'dependencies': [], + + # Define directories which contain relevant include headers: + 'include_dirs': [ + # Local include directory: + '<@(include_dirs)', + ], + + # List of source files: + 'sources': [ + '<@(src_files)', + ], + + # Settings which should be applied when a target's object files are used as linker input: + 'link_settings': { + # Define libraries: + 'libraries': [ + '<@(libraries)', + ], + + # Define library directories: + 'library_dirs': [ + '<@(library_dirs)', + ], + }, + + # C/C++ compiler flags: + 'cflags': [ + # Enable commonly used warning options: + '-Wall', + + # Aggressive optimization: + '-O3', + ], + + # C specific compiler flags: + 'cflags_c': [ + # Specify the C standard to which a program is expected to conform: + '-std=c99', + ], + + # C++ specific compiler flags: + 'cflags_cpp': [ + # Specify the C++ standard to which a program is expected to conform: + '-std=c++11', + ], + + # Linker flags: + 'ldflags': [], + + # Apply conditions based on the host OS: + 'conditions': [ + [ + 'OS=="mac"', + { + # Linker flags: + 'ldflags': [ + '-undefined dynamic_lookup', + '-Wl,-no-pie', + '-Wl,-search_paths_first', + ], + }, + ], # end condition (OS=="mac") + [ + 'OS!="win"', + { + # C/C++ flags: + 'cflags': [ + # Generate platform-independent code: + '-fPIC', + ], + }, + ], # end condition (OS!="win") + ], # end conditions + }, # end target <(addon_target_name) + + # Target to copy a generated add-on to a standard location: + { + 'target_name': 'copy_addon', + + # Declare that the output of this target is not linked: + 'type': 'none', + + # Define dependencies: + 'dependencies': [ + # Require that the add-on be generated before building this target: + '<(addon_target_name)', + ], + + # Define a list of actions: + 'actions': [ + { + 'action_name': 'copy_addon', + 'message': 'Copying addon...', + + # Explicitly list the inputs in the command-line invocation below: + 'inputs': [], + + # Declare the expected outputs: + 'outputs': [ + '<(addon_output_dir)/<(addon_target_name).node', + ], + + # Define the command-line invocation: + 'action': [ + 'cp', + '<(PRODUCT_DIR)/<(addon_target_name).node', + '<(addon_output_dir)/<(addon_target_name).node', + ], + }, + ], # end actions + }, # end target copy_addon + ], # end targets +} diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/Makefile b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/Makefile new file mode 100644 index 000000000000..6aed70daf167 --- /dev/null +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/Makefile @@ -0,0 +1,146 @@ +#/ +# @license Apache-2.0 +# +# Copyright (c) 2024 The Stdlib Authors. +# +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at +# +# http://www.apache.org/licenses/LICENSE-2.0 +# +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. +#/ + +# VARIABLES # + +ifndef VERBOSE + QUIET := @ +else + QUIET := +endif + +# Determine the OS ([1][1], [2][2]). +# +# [1]: https://en.wikipedia.org/wiki/Uname#Examples +# [2]: http://stackoverflow.com/a/27776822/2225624 +OS ?= $(shell uname) +ifneq (, $(findstring MINGW,$(OS))) + OS := WINNT +else +ifneq (, $(findstring MSYS,$(OS))) + OS := WINNT +else +ifneq (, $(findstring CYGWIN,$(OS))) + OS := WINNT +else +ifneq (, $(findstring Windows_NT,$(OS))) + OS := WINNT +endif +endif +endif +endif + +# Define the program used for compiling C source files: +ifdef C_COMPILER + CC := $(C_COMPILER) +else + CC := gcc +endif + +# Define the command-line options when compiling C files: +CFLAGS ?= \ + -std=c99 \ + -O3 \ + -Wall \ + -pedantic + +# Determine whether to generate position independent code ([1][1], [2][2]). +# +# [1]: https://gcc.gnu.org/onlinedocs/gcc/Code-Gen-Options.html#Code-Gen-Options +# [2]: http://stackoverflow.com/questions/5311515/gcc-fpic-option +ifeq ($(OS), WINNT) + fPIC ?= +else + fPIC ?= -fPIC +endif + +# List of includes (e.g., `-I /foo/bar -I /beep/boop/include`): +INCLUDE ?= + +# List of source files: +SOURCE_FILES ?= + +# List of libraries (e.g., `-lopenblas -lpthread`): +LIBRARIES ?= + +# List of library paths (e.g., `-L /foo/bar -L /beep/boop`): +LIBPATH ?= + +# List of C targets: +c_targets := example.out + + +# RULES # + +#/ +# Compiles source files. +# +# @param {string} [C_COMPILER] - C compiler (e.g., `gcc`) +# @param {string} [CFLAGS] - C compiler options +# @param {(string|void)} [fPIC] - compiler flag determining whether to generate position independent code (e.g., `-fPIC`) +# @param {string} [INCLUDE] - list of includes (e.g., `-I /foo/bar -I /beep/boop/include`) +# @param {string} [SOURCE_FILES] - list of source files +# @param {string} [LIBPATH] - list of library paths (e.g., `-L /foo/bar -L /beep/boop`) +# @param {string} [LIBRARIES] - list of libraries (e.g., `-lopenblas -lpthread`) +# +# @example +# make +# +# @example +# make all +#/ +all: $(c_targets) + +.PHONY: all + +#/ +# Compiles C source files. +# +# @private +# @param {string} CC - C compiler (e.g., `gcc`) +# @param {string} CFLAGS - C compiler options +# @param {(string|void)} fPIC - compiler flag determining whether to generate position independent code (e.g., `-fPIC`) +# @param {string} INCLUDE - list of includes (e.g., `-I /foo/bar`) +# @param {string} SOURCE_FILES - list of source files +# @param {string} LIBPATH - list of library paths (e.g., `-L /foo/bar`) +# @param {string} LIBRARIES - list of libraries (e.g., `-lopenblas`) +#/ +$(c_targets): %.out: %.c + $(QUIET) $(CC) $(CFLAGS) $(fPIC) $(INCLUDE) -o $@ $(SOURCE_FILES) $< $(LIBPATH) -lm $(LIBRARIES) + +#/ +# Runs compiled examples. +# +# @example +# make run +#/ +run: $(c_targets) + $(QUIET) ./$< + +.PHONY: run + +#/ +# Removes generated files. +# +# @example +# make clean +#/ +clean: + $(QUIET) -rm -f *.o *.out + +.PHONY: clean diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c new file mode 100644 index 000000000000..e39078118285 --- /dev/null +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c @@ -0,0 +1,42 @@ +/** +* @license Apache-2.0 +* +* Copyright (c) 2024 The Stdlib Authors. +* +* Licensed under the Apache License, Version 2.0 (the "License"); +* you may not use this file except in compliance with the License. +* You may obtain a copy of the License at +* +* http://www.apache.org/licenses/LICENSE-2.0 +* +* Unless required by applicable law or agreed to in writing, software +* distributed under the License is distributed on an "AS IS" BASIS, +* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +* See the License for the specific language governing permissions and +* limitations under the License. +*/ + +#include "stdlib/stats/base/dists/gamma/logpdf.h" +#include +#include + +static double random_uniform( const double min, const double max ) { + double v = (double)rand() / ( (double)RAND_MAX + 1.0 ); + return min + ( v*(max-min) ); +} + +int main( void ) { + double x; + double alpha; + double beta; + double y; + int i; + + for ( i = 0; i < 25; i++ ) { + x = random_uniform( 0.0, 10.0 ) - 5.0; + alpha = random_uniform( 0.0, 20.0 ); + beta = random_uniform( 0.0, 20.0 ); + y = stdlib_base_dists_gamma_logpdf( x, alpha, beta ); + printf( "x: %lf, alpha: %lf, beta: %lf, LogPdf(X;x,alpha,beta): %lf\n", x, alpha, beta, y ); + } +} diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include.gypi b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include.gypi new file mode 100644 index 000000000000..575cb043c0bf --- /dev/null +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include.gypi @@ -0,0 +1,53 @@ +# @license Apache-2.0 +# +# Copyright (c) 2024 The Stdlib Authors. +# +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at +# +# http://www.apache.org/licenses/LICENSE-2.0 +# +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. + +# A GYP include file for building a Node.js native add-on. +# +# Main documentation: +# +# [1]: https://gyp.gsrc.io/docs/InputFormatReference.md +# [2]: https://gyp.gsrc.io/docs/UserDocumentation.md +{ + # Define variables to be used throughout the configuration for all targets: + 'variables': { + # Source directory: + 'src_dir': './src', + + # Include directories: + 'include_dirs': [ + ' 1, and for high precision types very small values of `a` can give rather erroneous results for gamma: + if ( z <= STDLIB_CONSTANT_FLOAT64_MIN_LN ) { + // Use logs, so should be free of cancellation errors: + return stdlib_base_exp( ( a * stdlib_base_ln(z) ) - z - stdlib_base_gammaln( a ) ); + } + // No danger of overflow as gamma(a) < 1/a for small a, so direct calculation: + return stdlib_base_pow( z, a ) * stdlib_base_exp( -z ) / stdlib_base_gamma( a ); + } + if ( stdlib_base_abs(d*d*a) <= 100.0 && a > 150.0 ) { + // Special case for large a and a ~ z: + prefix = ( a * ( stdlib_base_log1p( d ) - d ) ) + ( z * ( 0.5-STDLIB_CONSTANT_FLOAT64_GAMMA_LANCZOS_G ) / agh ); + prefix = stdlib_base_exp( prefix ); + } + else { + // General case. Direct computation is most accurate, but use various fallbacks for different parts of the problem domain: + alz = a * stdlib_base_ln(z / agh); + amz = a - z; + if ( + stdlib_base_min(alz, amz) <= STDLIB_CONSTANT_FLOAT64_MIN_LN || + stdlib_base_max(alz, amz) >= STDLIB_CONSTANT_FLOAT64_MAX_LN + ) { + amza = amz / a; + if ( + stdlib_base_min(alz, amz)/2.0 > STDLIB_CONSTANT_FLOAT64_MIN_LN && + stdlib_base_max(alz, amz)/2.0 < STDLIB_CONSTANT_FLOAT64_MAX_LN + ) { + // Compute square root of the result and then square it: + sq = stdlib_base_pow( z / agh, a / 2.0 ) * stdlib_base_exp( amz / 2.0 ); + prefix = sq * sq; + } + else if ( + stdlib_base_min(alz, amz)/4.0 > STDLIB_CONSTANT_FLOAT64_MIN_LN && + stdlib_base_max(alz, amz)/4.0 < STDLIB_CONSTANT_FLOAT64_MAX_LN && + z > a + ) { + // Compute the 4th root of the result then square it twice: + sq = stdlib_base_pow( z / agh, a / 4.0 ) * stdlib_base_exp( amz / 4.0 ); + prefix = sq * sq; + prefix *= prefix; + } + else if ( + amza > STDLIB_CONSTANT_FLOAT64_MIN_LN && + amza < STDLIB_CONSTANT_FLOAT64_MAX_LN + ) { + prefix = stdlib_base_pow( (z * stdlib_base_exp(amza)) / agh, a ); + } + else { + prefix = stdlib_base_exp( alz + amz ); + } + } + else + { + prefix = stdlib_base_pow( z / agh, a ) * stdlib_base_exp( amz ); + } + } + prefix *= stdlib_base_sqrt( agh / STDLIB_CONSTANT_FLOAT64_E ) / stdlib_base_gamma_lanczos_sum_expg_scaled( a ); + return prefix; +} + +// END: regularised_gamma_prefix + +// BEGIN: gammma_p_derivative + +/** +* Calculates the partial derivative with respect to x of the incomplete gamma function. +* +* @private +* @param {PositiveNumber} a - function parameter +* @param {NonNegativeNumber} x - function parameter +* @returns {number} function value +*/ +static double gamma_p_derivative( const double a, const double x ) { + double f1; + if ( a <= 0.0 ) { + return 0.0/0.0; // NaN + } + if ( x < 0.0 ) { + return 0.0/0.0; // NaN + } + if ( x == 0.0 ) { + if ( a > 1.0 ) { + return 0.0; + } + return ( a == 1.0 ) ? 1.0 : STDLIB_CONSTANT_FLOAT64_PINF; + } + f1 = regularised_gamma_prefix( a, x ); + if ( x < 1.0 && ( STDLIB_CONSTANT_FLOAT64_MAX * x < f1 ) ) { + return STDLIB_CONSTANT_FLOAT64_PINF; + } + if ( f1 == 0.0 ) { + // Underflow in calculation, use logs instead: + f1 = (a * stdlib_base_ln( x )) - x - stdlib_base_gammaln( a ) - stdlib_base_ln( x ); + f1 = stdlib_base_exp( f1 ); + } else { + f1 /= x; + } + return f1; +} + +// END: gammma_p_derivative + +// MAIN // + +/** +* +* @param {number} x - input value +* @param {NonNegativeNumber} alpha - shape parameter +* @param {PositiveNumber} beta - rate parameter +* @returns {number} evaluated logPDF +* +* @example +* double y = stdlib_base_dists_gamma_logpdf( 2.0, 0.5, 1.0 ); +* // returns ~-2.919 +*/ +double stdlib_base_dists_gamma_logpdf( const double x, const double alpha, const double beta ) { + if ( + stdlib_base_is_nan( x ) || + stdlib_base_is_nan( alpha ) || + stdlib_base_is_nan( beta ) || + alpha < 0.0 || + beta <= 0.0 + ) { + return 0.0/0.0; // NaN + } + if ( x < 0.0 || x == STDLIB_CONSTANT_FLOAT64_PINF ) { + return STDLIB_CONSTANT_FLOAT64_NINF; + } + if ( alpha == 0.0 ) { + // Point mass at 0... + return ( x == 0.0 ) ? STDLIB_CONSTANT_FLOAT64_PINF : STDLIB_CONSTANT_FLOAT64_NINF; + } + return stdlib_base_ln( gamma_p_derivative( alpha, x * beta ) ) + stdlib_base_ln( beta ); +} + diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js new file mode 100644 index 000000000000..a6e22cb84d38 --- /dev/null +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js @@ -0,0 +1,232 @@ +/** +* @license Apache-2.0 +* +* Copyright (c) 2018 The Stdlib Authors. +* +* Licensed under the Apache License, Version 2.0 (the "License"); +* you may not use this file except in compliance with the License. +* You may obtain a copy of the License at +* +* http://www.apache.org/licenses/LICENSE-2.0 +* +* Unless required by applicable law or agreed to in writing, software +* distributed under the License is distributed on an "AS IS" BASIS, +* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +* See the License for the specific language governing permissions and +* limitations under the License. +*/ + +'use strict'; + +// MODULES // + +var resolve = require( 'path' ).resolve; +var tape = require( 'tape' ); +var tryRequire = require( '@stdlib/utils/try-require' ); +var isnan = require( '@stdlib/math/base/assert/is-nan' ); +var abs = require( '@stdlib/math/base/special/abs' ); +var PINF = require( '@stdlib/constants/float64/pinf' ); +var NINF = require( '@stdlib/constants/float64/ninf' ); +var EPS = require( '@stdlib/constants/float64/eps' ); + + +// VARIABLES // + +var logpdf = tryRequire( resolve( __dirname, './../lib/native.js' ) ); +var opts = { + 'skip': ( logpdf instanceof Error ) +}; + + +// FIXTURES // + +var largeRate = require( './fixtures/julia/large_rate.json' ); +var largeShape = require( './fixtures/julia/large_shape.json' ); +var bothLarge = require( './fixtures/julia/both_large.json' ); + + +// TESTS // + +tape( 'main export is a function', opts, function test( t ) { + t.ok( true, __filename ); + t.strictEqual( typeof logpdf, 'function', 'main export is a function' ); + t.end(); +}); + +tape( 'if provided `NaN` for any parameter, the function returns `NaN`', opts, function test( t ) { + var y = logpdf( NaN, 1.0, 1.0 ); + t.equal( isnan( y ), true, 'returns NaN' ); + y = logpdf( 0.0, NaN, 1.0 ); + t.equal( isnan( y ), true, 'returns NaN' ); + y = logpdf( 0.0, 1.0, NaN ); + t.equal( isnan( y ), true, 'returns NaN' ); + t.end(); +}); + +tape( 'if provided `+infinity` for `x` and a finite `alpha` and `beta`, the function returns `-Infinity`', opts, function test( t ) { + var y = logpdf( PINF, 1.0, 1.0 ); + t.equal( y, NINF, 'returns -Infinity' ); + t.end(); +}); + +tape( 'if provided `-infinity` for `x` and a finite `alpha` and `beta`, the function returns `0`', opts, function test( t ) { + var y = logpdf( NINF, 1.0, 1.0 ); + t.equal( y, NINF, 'returns -Infinity' ); + t.end(); +}); + +tape( 'if provided `alpha < 0`, the function returns `NaN`', opts, function test( t ) { + var y; + + y = logpdf( 2.0, -1.0, 2.0 ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 0.0, -1.0, 2.0 ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 2.0, NINF, 1.0 ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 2.0, NINF, PINF ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 2.0, NINF, NINF ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 2.0, NINF, NaN ); + t.equal( isnan( y ), true, 'returns NaN' ); + + t.end(); +}); + +tape( 'if provided `beta <= 0`, the function returns `NaN`', opts, function test( t ) { + var y; + + y = logpdf( 2.0, 2.0, 0.0 ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 2.0, 2.0, -1.0 ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 0.0, 2.0, -1.0 ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 2.0, 1.0, NINF ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 2.0, PINF, NINF ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 2.0, NINF, NINF ); + t.equal( isnan( y ), true, 'returns NaN' ); + + y = logpdf( 2.0, NaN, NINF ); + t.equal( isnan( y ), true, 'returns NaN' ); + + t.end(); +}); + +tape( 'if `alpha` equals `0`, the function evaluates a degenerate distribution centered at `0`', opts, function test( t ) { + var y; + + y = logpdf( 0.0, 0.0 ); + t.equal( y, PINF, 'returns +infinity for x equal to 0' ); + + y = logpdf( 1.0, 0.0 ); + t.equal( y, NINF, 'returns -infinity' ); + + y = logpdf( -1.5, 0.0 ); + t.equal( y, NINF, 'returns -infinity' ); + + y = logpdf( PINF, 0.0 ); + t.equal( y, NINF, 'returns -infinity' ); + + y = logpdf( NINF, 0.0 ); + t.equal( y, NINF, 'returns -infinity' ); + + y = logpdf( NaN, 0.0 ); + t.equal( isnan( y ), true, 'returns NaN' ); + + t.end(); +}); + +tape( 'the function evaluates the logpdf for `x` given large `alpha` and `beta`', opts, function test( t ) { + var expected; + var alpha; + var delta; + var beta; + var tol; + var i; + var x; + var y; + + expected = bothLarge.expected; + x = bothLarge.x; + alpha = bothLarge.alpha; + beta = bothLarge.beta; + for ( i = 0; i < x.length; i++ ) { + y = logpdf( x[i], alpha[i], beta[i] ); + if ( y === expected[i] ) { + t.equal( y, expected[i], 'x: '+x[i]+', alpha: '+alpha[i]+', beta: '+beta[i]+', y: '+y+', expected: '+expected[i] ); + } else { + delta = abs( y - expected[ i ] ); + tol = 900.0 * EPS * abs( expected[ i ] ); + t.ok( delta <= tol, 'within tolerance. x: '+x[ i ]+'. alpha: '+alpha[i]+'. beta: '+beta[i]+'. y: '+y+'. E: '+expected[ i ]+'. Δ: '+delta+'. tol: '+tol+'.' ); + } + } + t.end(); +}); + +tape( 'the function evaluates the logpdf for `x` given large shape parameter `alpha`', opts, function test( t ) { + var expected; + var alpha; + var delta; + var beta; + var tol; + var i; + var x; + var y; + + expected = largeShape.expected; + x = largeShape.x; + alpha = largeShape.alpha; + beta = largeShape.beta; + for ( i = 0; i < x.length; i++ ) { + y = logpdf( x[i], alpha[i], beta[i] ); + if ( y === expected[i] ) { + t.equal( y, expected[i], 'x: '+x[i]+', alpha: '+alpha[i]+', beta: '+beta[i]+', y: '+y+', expected: '+expected[i] ); + } else { + delta = abs( y - expected[ i ] ); + tol = 350.0 * EPS * abs( expected[ i ] ); + t.ok( delta <= tol, 'within tolerance. x: '+x[ i ]+'. alpha: '+alpha[i]+'. beta: '+beta[i]+'. y: '+y+'. E: '+expected[ i ]+'. Δ: '+delta+'. tol: '+tol+'.' ); + } + } + t.end(); +}); + +tape( 'the function evaluates the logpdf for `x` given large rate parameter `beta`', opts, function test( t ) { + var expected; + var alpha; + var delta; + var beta; + var tol; + var i; + var x; + var y; + + expected = largeRate.expected; + x = largeRate.x; + alpha = largeRate.alpha; + beta = largeRate.beta; + for ( i = 0; i < x.length; i++ ) { + y = logpdf( x[i], alpha[i], beta[i] ); + if ( y === expected[i] ) { + t.equal( y, expected[i], 'x: '+x[i]+', alpha: '+alpha[i]+', beta: '+beta[i]+', y: '+y+', expected: '+expected[i] ); + } else { + delta = abs( y - expected[ i ] ); + tol = 350.0 * EPS * abs( expected[ i ] ); + t.ok( delta <= tol, 'within tolerance. x: '+x[ i ]+'. alpha: '+alpha[i]+'. beta: '+beta[i]+'. y: '+y+'. E: '+expected[ i ]+'. Δ: '+delta+'. tol: '+tol+'.' ); + } + } + t.end(); +}); From b78288ac95a8c53ab9c975c2cca0228b139f35f1 Mon Sep 17 00:00:00 2001 From: stdlib-bot <82920195+stdlib-bot@users.noreply.github.com> Date: Sat, 18 Jan 2025 10:12:53 +0000 Subject: [PATCH 02/13] chore: update copyright years --- .../stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/Makefile | 2 +- .../stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/binding.gyp | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/examples/c/Makefile | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/include.gypi | 2 +- .../gamma/logpdf/include/stdlib/stats/base/dists/gamma/logpdf.h | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/lib/native.js | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/src/Makefile | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/src/addon.c | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/src/main.c | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js | 2 +- 13 files changed, 13 insertions(+), 13 deletions(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js index 3c785b4951c2..e443b017f403 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js @@ -1,7 +1,7 @@ /** * @license Apache-2.0 * -* Copyright (c) 2024 The Stdlib Authors. +* Copyright (c) 2025 The Stdlib Authors. * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/Makefile b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/Makefile index f69e9da2b4d3..a4bd7b38fd74 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/Makefile +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/Makefile @@ -1,7 +1,7 @@ #/ # @license Apache-2.0 # -# Copyright (c) 2024 The Stdlib Authors. +# Copyright (c) 2025 The Stdlib Authors. # # Licensed under the Apache License, Version 2.0 (the "License"); # you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c index 66d2053aee03..786a3aba05fb 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c @@ -1,7 +1,7 @@ /** * @license Apache-2.0 * -* Copyright (c) 2024 The Stdlib Authors. +* Copyright (c) 2025 The Stdlib Authors. * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/binding.gyp b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/binding.gyp index ec3992233442..68a1ca11d160 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/binding.gyp +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/binding.gyp @@ -1,6 +1,6 @@ # @license Apache-2.0 # -# Copyright (c) 2024 The Stdlib Authors. +# Copyright (c) 2025 The Stdlib Authors. # # Licensed under the Apache License, Version 2.0 (the "License"); # you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/Makefile b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/Makefile index 6aed70daf167..25ced822f96a 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/Makefile +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/Makefile @@ -1,7 +1,7 @@ #/ # @license Apache-2.0 # -# Copyright (c) 2024 The Stdlib Authors. +# Copyright (c) 2025 The Stdlib Authors. # # Licensed under the Apache License, Version 2.0 (the "License"); # you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c index e39078118285..5c9453999d8e 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c @@ -1,7 +1,7 @@ /** * @license Apache-2.0 * -* Copyright (c) 2024 The Stdlib Authors. +* Copyright (c) 2025 The Stdlib Authors. * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include.gypi b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include.gypi index 575cb043c0bf..ecfaf82a3279 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include.gypi +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include.gypi @@ -1,6 +1,6 @@ # @license Apache-2.0 # -# Copyright (c) 2024 The Stdlib Authors. +# Copyright (c) 2025 The Stdlib Authors. # # Licensed under the Apache License, Version 2.0 (the "License"); # you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include/stdlib/stats/base/dists/gamma/logpdf.h b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include/stdlib/stats/base/dists/gamma/logpdf.h index 73f77c89cb3d..d6ff0f4151be 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include/stdlib/stats/base/dists/gamma/logpdf.h +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/include/stdlib/stats/base/dists/gamma/logpdf.h @@ -1,7 +1,7 @@ /** * @license Apache-2.0 * -* Copyright (c) 2024 The Stdlib Authors. +* Copyright (c) 2025 The Stdlib Authors. * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/lib/native.js b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/lib/native.js index ceb623e033a4..721775114a39 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/lib/native.js +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/lib/native.js @@ -1,7 +1,7 @@ /** * @license Apache-2.0 * -* Copyright (c) 2024 The Stdlib Authors. +* Copyright (c) 2025 The Stdlib Authors. * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/Makefile b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/Makefile index bcf18aa46655..7733b6180cb4 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/Makefile +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/Makefile @@ -1,7 +1,7 @@ #/ # @license Apache-2.0 # -# Copyright (c) 2024 The Stdlib Authors. +# Copyright (c) 2025 The Stdlib Authors. # # Licensed under the Apache License, Version 2.0 (the "License"); # you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/addon.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/addon.c index 1d117344617f..35ed213ba279 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/addon.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/addon.c @@ -1,7 +1,7 @@ /** * @license Apache-2.0 * -* Copyright (c) 2024 The Stdlib Authors. +* Copyright (c) 2025 The Stdlib Authors. * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c index 05fe4e43f1a1..14b7d212e3aa 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c @@ -1,7 +1,7 @@ /** * @license Apache-2.0 * -* Copyright (c) 2018 The Stdlib Authors. +* Copyright (c) 2025 The Stdlib Authors. * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js index a6e22cb84d38..737ddfa32922 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js @@ -1,7 +1,7 @@ /** * @license Apache-2.0 * -* Copyright (c) 2018 The Stdlib Authors. +* Copyright (c) 2025 The Stdlib Authors. * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. From fd375463403a8122573a1b43a9622582b54ce7df Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Wed, 22 Jan 2025 00:00:27 +0530 Subject: [PATCH 03/13] fix: update test.native.js Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../base/dists/gamma/logpdf/test/test.native.js | 12 ++++++------ 1 file changed, 6 insertions(+), 6 deletions(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js index 737ddfa32922..9b99333f0558 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/test/test.native.js @@ -129,22 +129,22 @@ tape( 'if provided `beta <= 0`, the function returns `NaN`', opts, function test tape( 'if `alpha` equals `0`, the function evaluates a degenerate distribution centered at `0`', opts, function test( t ) { var y; - y = logpdf( 0.0, 0.0 ); + y = logpdf( 0.0, 0.0, 1.0 ); t.equal( y, PINF, 'returns +infinity for x equal to 0' ); - y = logpdf( 1.0, 0.0 ); + y = logpdf( 1.0, 0.0, 1.0 ); t.equal( y, NINF, 'returns -infinity' ); - y = logpdf( -1.5, 0.0 ); + y = logpdf( -1.5, 0.0, 1.0 ); t.equal( y, NINF, 'returns -infinity' ); - y = logpdf( PINF, 0.0 ); + y = logpdf( PINF, 0.0, 1.0 ); t.equal( y, NINF, 'returns -infinity' ); - y = logpdf( NINF, 0.0 ); + y = logpdf( NINF, 0.0, 1.0 ); t.equal( y, NINF, 'returns -infinity' ); - y = logpdf( NaN, 0.0 ); + y = logpdf( NaN, 0.0, 1.0 ); t.equal( isnan( y ), true, 'returns NaN' ); t.end(); From 059b57fc26df7c4d118a695b0ceda495710fd2a9 Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Thu, 3 Apr 2025 09:29:39 +0530 Subject: [PATCH 04/13] chore: change variables format Co-authored-by: Philipp Burckhardt Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../@stdlib/stats/base/dists/gamma/logpdf/README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md index 389bc8bcdd1f..15ddc19a2f5d 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md @@ -229,9 +229,9 @@ static double random_uniform( const double min, const double max ) { } int main( void ) { - double x; double alpha; double beta; + double x; double y; int i; From e495141fc1622e31676c3b314bebd0d8e5a41cab Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Thu, 3 Apr 2025 09:30:20 +0530 Subject: [PATCH 05/13] chore: add variable symbols Co-authored-by: Philipp Burckhardt Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../@stdlib/stats/base/dists/gamma/logpdf/README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md index 15ddc19a2f5d..960d84e4fa2c 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/README.md @@ -240,7 +240,7 @@ int main( void ) { alpha = random_uniform( 0.0, 20.0 ); beta = random_uniform( 0.0, 20.0 ); y = stdlib_base_dists_gamma_logpdf( x, alpha, beta ); - printf( "x: %lf, alpha: %lf, beta: %lf, LogPdf(X;x,alpha,beta): %lf\n", x, alpha, beta, y ); + printf( "x: %lf, α: %lf, β: %lf, ln(f(x;α,β)): %lf\n", x, alpha, beta, y ); } } ``` From 538a337f913706bb7d55b5e50108cf02289bc226 Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Thu, 3 Apr 2025 09:30:57 +0530 Subject: [PATCH 06/13] chore: fix jsdoc Co-authored-by: Philipp Burckhardt Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../@stdlib/stats/base/dists/gamma/logpdf/lib/native.js | 1 + 1 file changed, 1 insertion(+) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/lib/native.js b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/lib/native.js index 721775114a39..d8407a737e70 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/lib/native.js +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/lib/native.js @@ -28,6 +28,7 @@ var addon = require( './../src/addon.node' ); /** * Evaluates the logarithm of the probability density function (PDF) for a gamma distribution with shape parameter `alpha` and rate parameter `beta` at a value `x`. * +* @private * @param {number} x - input value * @param {NonNegativeNumber} alpha - shape parameter * @param {PositiveNumber} beta - rate parameter From 94c8f94cb16574203a6a2942ca258b0ae07b19bb Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Fri, 4 Apr 2025 07:13:39 +0530 Subject: [PATCH 07/13] chore: add variable symbols Co-authored-by: Philipp Burckhardt Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c index 5c9453999d8e..c0f7fa4fceaa 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c @@ -37,6 +37,6 @@ int main( void ) { alpha = random_uniform( 0.0, 20.0 ); beta = random_uniform( 0.0, 20.0 ); y = stdlib_base_dists_gamma_logpdf( x, alpha, beta ); - printf( "x: %lf, alpha: %lf, beta: %lf, LogPdf(X;x,alpha,beta): %lf\n", x, alpha, beta, y ); + printf( "x: %lf, α: %lf, β: %lf, ln(f(x;α,β)):: %lf\n", x, alpha, beta, y ); } } From 2b08fe693dd3167581388370909de4e8828b7694 Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Fri, 4 Apr 2025 10:34:50 +0530 Subject: [PATCH 08/13] fix: add indentation Co-authored-by: Philipp Burckhardt Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c index 786a3aba05fb..5fabde20e70f 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/c/benchmark.c @@ -102,9 +102,9 @@ static double benchmark( void ) { int i; for ( i = 0; i < 100; i++ ) { - x[ i ] = random_uniform( 0.0, 100.0 ) + STDLIB_CONSTANT_FLOAT64_EPS; - alpha[ i ] = random_uniform( 0.0, 100.0 ) + STDLIB_CONSTANT_FLOAT64_EPS; - beta[ i ] = random_uniform( 0.0, 100.0 ) + STDLIB_CONSTANT_FLOAT64_EPS; + x[ i ] = random_uniform( 0STDLIB_CONSTANT_FLOAT64_EPS, 100.0 ); + alpha[ i ] = random_uniform( STDLIB_CONSTANT_FLOAT64_EPS, 100.0 ); + beta[ i ] = random_uniform( STDLIB_CONSTANT_FLOAT64_EPS, 100.0 ); } t = tic(); From 78357ccd95352dec544e60924cc55d11c8a680bd Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Fri, 4 Apr 2025 10:35:32 +0530 Subject: [PATCH 09/13] fix: add indentation Co-authored-by: Philipp Burckhardt Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c index c0f7fa4fceaa..7fc38d82faf2 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c @@ -35,7 +35,7 @@ int main( void ) { for ( i = 0; i < 25; i++ ) { x = random_uniform( 0.0, 10.0 ) - 5.0; alpha = random_uniform( 0.0, 20.0 ); - beta = random_uniform( 0.0, 20.0 ); + beta = random_uniform( 0.0, 20.0 ); y = stdlib_base_dists_gamma_logpdf( x, alpha, beta ); printf( "x: %lf, α: %lf, β: %lf, ln(f(x;α,β)):: %lf\n", x, alpha, beta, y ); } From d1fd518d2451cf81009dc0db09c95096337abc6e Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Fri, 4 Apr 2025 11:50:52 +0530 Subject: [PATCH 10/13] fix: jsdoc to doxygen Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../stats/base/dists/gamma/logpdf/src/main.c | 20 +++++++++---------- 1 file changed, 10 insertions(+), 10 deletions(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c index 14b7d212e3aa..daa971e14704 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c @@ -45,9 +45,9 @@ * Computes `(z^a)*(e^-z) / gamma(a)`. * * @private -* @param {number} a - input value -* @param {number} z - input value -* @returns {number} function value +* @param a input value +* @param z input value +* @returns function value */ static double regularised_gamma_prefix( const double a, const double z ) { double prefix; @@ -128,9 +128,9 @@ static double regularised_gamma_prefix( const double a, const double z ) { * Calculates the partial derivative with respect to x of the incomplete gamma function. * * @private -* @param {PositiveNumber} a - function parameter -* @param {NonNegativeNumber} x - function parameter -* @returns {number} function value +* @param a function parameter +* @param x function parameter +* @returns function value */ static double gamma_p_derivative( const double a, const double x ) { double f1; @@ -166,10 +166,10 @@ static double gamma_p_derivative( const double a, const double x ) { /** * -* @param {number} x - input value -* @param {NonNegativeNumber} alpha - shape parameter -* @param {PositiveNumber} beta - rate parameter -* @returns {number} evaluated logPDF +* @param x input value +* @param alpha shape parameter +* @param beta rate parameter +* @returns evaluated logPDF * * @example * double y = stdlib_base_dists_gamma_logpdf( 2.0, 0.5, 1.0 ); From 512519ac483da02b730b494c98c0e1ce78c76f3b Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Fri, 4 Apr 2025 12:23:56 +0530 Subject: [PATCH 11/13] fix: remove indentations Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../base/dists/gamma/logpdf/manifest.json | 262 +++++++++--------- 1 file changed, 131 insertions(+), 131 deletions(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/manifest.json b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/manifest.json index 53170d95a06b..37d481175cce 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/manifest.json +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/manifest.json @@ -1,134 +1,134 @@ { - "options": { + "options": { + "task": "build", + "wasm": false + }, + "fields": [ + { + "field": "src", + "resolve": true, + "relative": true + }, + { + "field": "include", + "resolve": true, + "relative": true + }, + { + "field": "libraries", + "resolve": false, + "relative": false + }, + { + "field": "libpath", + "resolve": true, + "relative": false + } + ], + "confs": [ + { "task": "build", - "wasm": false + "wasm": false, + "src": [ + "./src/main.c" + ], + "include": [ + "./include" + ], + "libraries": [], + "libpath": [], + "dependencies": [ + "@stdlib/math/base/napi/ternary", + "@stdlib/math/base/assert/is-nan", + "@stdlib/math/base/special/ln", + "@stdlib/constants/float64/pinf", + "@stdlib/constants/float64/ninf", + "@stdlib/math/base/special/gammaln", + "@stdlib/math/base/special/exp", + "@stdlib/constants/float64/max", + "@stdlib/math/base/special/gamma-lanczos-sum-expg-scaled", + "@stdlib/math/base/special/gamma", + "@stdlib/math/base/special/log1p", + "@stdlib/math/base/special/sqrt", + "@stdlib/math/base/special/abs", + "@stdlib/math/base/special/pow", + "@stdlib/math/base/special/max", + "@stdlib/math/base/special/min", + "@stdlib/math/base/special/ln", + "@stdlib/constants/float64/max-ln", + "@stdlib/constants/float64/min-ln", + "@stdlib/constants/float64/gamma-lanczos-g", + "@stdlib/constants/float64/e" + ] + }, + { + "task": "benchmark", + "wasm": false, + "src": [ + "./src/main.c" + ], + "include": [ + "./include" + ], + "libraries": [], + "libpath": [], + "dependencies": [ + "@stdlib/math/base/assert/is-nan", + "@stdlib/math/base/special/ln", + "@stdlib/constants/float64/pinf", + "@stdlib/constants/float64/ninf", + "@stdlib/math/base/special/gammaln", + "@stdlib/math/base/special/exp", + "@stdlib/constants/float64/max", + "@stdlib/math/base/special/gamma-lanczos-sum-expg-scaled", + "@stdlib/math/base/special/gamma", + "@stdlib/math/base/special/log1p", + "@stdlib/math/base/special/sqrt", + "@stdlib/math/base/special/abs", + "@stdlib/math/base/special/pow", + "@stdlib/math/base/special/max", + "@stdlib/math/base/special/min", + "@stdlib/math/base/special/ln", + "@stdlib/constants/float64/max-ln", + "@stdlib/constants/float64/min-ln", + "@stdlib/constants/float64/gamma-lanczos-g", + "@stdlib/constants/float64/e", + "@stdlib/constants/float64/eps" + ] }, - "fields": [ - { - "field": "src", - "resolve": true, - "relative": true - }, - { - "field": "include", - "resolve": true, - "relative": true - }, - { - "field": "libraries", - "resolve": false, - "relative": false - }, - { - "field": "libpath", - "resolve": true, - "relative": false - } - ], - "confs": [ - { - "task": "build", - "wasm": false, - "src": [ - "./src/main.c" - ], - "include": [ - "./include" - ], - "libraries": [], - "libpath": [], - "dependencies": [ - "@stdlib/math/base/napi/ternary", - "@stdlib/math/base/assert/is-nan", - "@stdlib/math/base/special/ln", - "@stdlib/constants/float64/pinf", - "@stdlib/constants/float64/ninf", - "@stdlib/math/base/special/gammaln", - "@stdlib/math/base/special/exp", - "@stdlib/constants/float64/max", - "@stdlib/math/base/special/gamma-lanczos-sum-expg-scaled", - "@stdlib/math/base/special/gamma", - "@stdlib/math/base/special/log1p", - "@stdlib/math/base/special/sqrt", - "@stdlib/math/base/special/abs", - "@stdlib/math/base/special/pow", - "@stdlib/math/base/special/max", - "@stdlib/math/base/special/min", - "@stdlib/math/base/special/ln", - "@stdlib/constants/float64/max-ln", - "@stdlib/constants/float64/min-ln", - "@stdlib/constants/float64/gamma-lanczos-g", - "@stdlib/constants/float64/e" - ] - }, - { - "task": "benchmark", - "wasm": false, - "src": [ - "./src/main.c" - ], - "include": [ - "./include" - ], - "libraries": [], - "libpath": [], - "dependencies": [ - "@stdlib/math/base/assert/is-nan", - "@stdlib/math/base/special/ln", - "@stdlib/constants/float64/pinf", - "@stdlib/constants/float64/ninf", - "@stdlib/math/base/special/gammaln", - "@stdlib/math/base/special/exp", - "@stdlib/constants/float64/max", - "@stdlib/math/base/special/gamma-lanczos-sum-expg-scaled", - "@stdlib/math/base/special/gamma", - "@stdlib/math/base/special/log1p", - "@stdlib/math/base/special/sqrt", - "@stdlib/math/base/special/abs", - "@stdlib/math/base/special/pow", - "@stdlib/math/base/special/max", - "@stdlib/math/base/special/min", - "@stdlib/math/base/special/ln", - "@stdlib/constants/float64/max-ln", - "@stdlib/constants/float64/min-ln", - "@stdlib/constants/float64/gamma-lanczos-g", - "@stdlib/constants/float64/e", - "@stdlib/constants/float64/eps" - ] - }, - { - "task": "examples", - "wasm": false, - "src": [ - "./src/main.c" - ], - "include": [ - "./include" - ], - "libraries": [], - "libpath": [], - "dependencies": [ - "@stdlib/math/base/assert/is-nan", - "@stdlib/math/base/special/ln", - "@stdlib/constants/float64/pinf", - "@stdlib/constants/float64/ninf", - "@stdlib/math/base/special/gammaln", - "@stdlib/math/base/special/exp", - "@stdlib/constants/float64/max", - "@stdlib/math/base/special/gamma-lanczos-sum-expg-scaled", - "@stdlib/math/base/special/gamma", - "@stdlib/math/base/special/log1p", - "@stdlib/math/base/special/sqrt", - "@stdlib/math/base/special/abs", - "@stdlib/math/base/special/pow", - "@stdlib/math/base/special/max", - "@stdlib/math/base/special/min", - "@stdlib/math/base/special/ln", - "@stdlib/constants/float64/max-ln", - "@stdlib/constants/float64/min-ln", - "@stdlib/constants/float64/gamma-lanczos-g", - "@stdlib/constants/float64/e" - ] - } - ] - } + { + "task": "examples", + "wasm": false, + "src": [ + "./src/main.c" + ], + "include": [ + "./include" + ], + "libraries": [], + "libpath": [], + "dependencies": [ + "@stdlib/math/base/assert/is-nan", + "@stdlib/math/base/special/ln", + "@stdlib/constants/float64/pinf", + "@stdlib/constants/float64/ninf", + "@stdlib/math/base/special/gammaln", + "@stdlib/math/base/special/exp", + "@stdlib/constants/float64/max", + "@stdlib/math/base/special/gamma-lanczos-sum-expg-scaled", + "@stdlib/math/base/special/gamma", + "@stdlib/math/base/special/log1p", + "@stdlib/math/base/special/sqrt", + "@stdlib/math/base/special/abs", + "@stdlib/math/base/special/pow", + "@stdlib/math/base/special/max", + "@stdlib/math/base/special/min", + "@stdlib/math/base/special/ln", + "@stdlib/constants/float64/max-ln", + "@stdlib/constants/float64/min-ln", + "@stdlib/constants/float64/gamma-lanczos-g", + "@stdlib/constants/float64/e" + ] + } + ] +} From e61505264bcac8f62d834680333fe8bebc2a0380 Mon Sep 17 00:00:00 2001 From: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> Date: Wed, 16 Apr 2025 06:59:14 +0530 Subject: [PATCH 12/13] fix: indentation and variables structure Co-authored-by: Philipp Burckhardt Signed-off-by: Shabareesh Shetty <139731143+ShabiShett07@users.noreply.github.com> --- .../stats/base/dists/gamma/logpdf/examples/c/example.c | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c index 7fc38d82faf2..8aae75075046 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c @@ -26,9 +26,9 @@ static double random_uniform( const double min, const double max ) { } int main( void ) { - double x; double alpha; - double beta; + double beta; + double x; double y; int i; From 4d7f36c2fa9842036a2898495af2f7edb20ac5c4 Mon Sep 17 00:00:00 2001 From: Philipp Burckhardt Date: Fri, 18 Apr 2025 21:51:43 -0400 Subject: [PATCH 13/13] chore: apply suggestions from code review Signed-off-by: Philipp Burckhardt --- .../dists/gamma/logpdf/benchmark/benchmark.native.js | 8 ++++---- .../stats/base/dists/gamma/logpdf/examples/c/example.c | 2 +- .../@stdlib/stats/base/dists/gamma/logpdf/src/main.c | 9 ++++----- 3 files changed, 9 insertions(+), 10 deletions(-) diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js index e443b017f403..1163c3fddbb2 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/benchmark/benchmark.native.js @@ -24,7 +24,7 @@ var resolve = require( 'path' ).resolve; var bench = require( '@stdlib/bench' ); var Float64Array = require( '@stdlib/array/float64' ); var tryRequire = require( '@stdlib/utils/try-require' ); -var randu = require( '@stdlib/random/base/randu' ); +var uniform = require( '@stdlib/random/base/uniform' ); var isnan = require( '@stdlib/math/base/assert/is-nan' ); var EPS = require( '@stdlib/constants/float64/eps' ); var pkg = require( './../package.json' ).name; @@ -53,9 +53,9 @@ bench( pkg+'::native', opts, function benchmark( b ) { alpha = new Float64Array( len ); beta = new Float64Array( len ); for ( i = 0; i < len; i++ ) { - x[ i ] = ( randu()*100.0 ) + EPS; - alpha[ i ] = ( randu()*100.0 ) + EPS; - beta[ i ] = ( randu()*100.0 ) + EPS; + x[ i ] = uniform( EPS, 100.0 ); + alpha[ i ] = uniform( EPS, 100.0 ); + beta[ i ] = uniform( EPS, 100.0 ); } b.tic(); diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c index 8aae75075046..0c297de7ba62 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/examples/c/example.c @@ -37,6 +37,6 @@ int main( void ) { alpha = random_uniform( 0.0, 20.0 ); beta = random_uniform( 0.0, 20.0 ); y = stdlib_base_dists_gamma_logpdf( x, alpha, beta ); - printf( "x: %lf, α: %lf, β: %lf, ln(f(x;α,β)):: %lf\n", x, alpha, beta, y ); + printf( "x: %lf, α: %lf, β: %lf, ln(f(x;α,β)): %lf\n", x, alpha, beta, y ); } } diff --git a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c index daa971e14704..94b7e9ba3478 100644 --- a/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c +++ b/lib/node_modules/@stdlib/stats/base/dists/gamma/logpdf/src/main.c @@ -44,10 +44,9 @@ /** * Computes `(z^a)*(e^-z) / gamma(a)`. * -* @private * @param a input value * @param z input value -* @returns function value +* @return function value */ static double regularised_gamma_prefix( const double a, const double z ) { double prefix; @@ -127,10 +126,9 @@ static double regularised_gamma_prefix( const double a, const double z ) { /** * Calculates the partial derivative with respect to x of the incomplete gamma function. * -* @private * @param a function parameter * @param x function parameter -* @returns function value +* @return function value */ static double gamma_p_derivative( const double a, const double x ) { double f1; @@ -165,11 +163,12 @@ static double gamma_p_derivative( const double a, const double x ) { // MAIN // /** +* Evaluates the logarithm of the probability density function (PDF) for a gamma distribution with shape parameter `alpha` and rate parameter `beta` at a value `x`. * * @param x input value * @param alpha shape parameter * @param beta rate parameter -* @returns evaluated logPDF +* @return evaluated logPDF * * @example * double y = stdlib_base_dists_gamma_logpdf( 2.0, 0.5, 1.0 );