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/*
Language: Stan
Description: The Stan probabilistic programming language
Author: Sean Pinkney <sean.pinkney@gmail.com>
Website: http://mc-stan.org/
Category: scientific
*/
function stan(hljs) {
const regex = hljs.regex;
// variable names cannot conflict with block identifiers
const BLOCKS = [
'functions',
'model',
'data',
'parameters',
'quantities',
'transformed',
'generated'
];
const STATEMENTS = [
'for',
'in',
'if',
'else',
'while',
'break',
'continue',
'return'
];
const TYPES = [
'array',
'complex',
'int',
'real',
'vector',
'ordered',
'positive_ordered',
'simplex',
'unit_vector',
'row_vector',
'matrix',
'cholesky_factor_corr|10',
'cholesky_factor_cov|10',
'corr_matrix|10',
'cov_matrix|10',
'void'
];
// to get the functions list
// clone the [stan-docs repo](https://github.com/stan-dev/docs)
// then cd into it and run this bash script https://gist.github.com/joshgoebel/dcd33f82d4059a907c986049893843cf
//
// the output files are
// distributions_quoted.txt
// functions_quoted.txt
const FUNCTIONS = [
'Phi',
'Phi_approx',
'abs',
'acos',
'acosh',
'add_diag',
'algebra_solver',
'algebra_solver_newton',
'append_array',
'append_col',
'append_row',
'asin',
'asinh',
'atan',
'atan2',
'atanh',
'bessel_first_kind',
'bessel_second_kind',
'binary_log_loss',
'binomial_coefficient_log',
'block',
'cbrt',
'ceil',
'chol2inv',
'cholesky_decompose',
'choose',
'col',
'cols',
'columns_dot_product',
'columns_dot_self',
'conj',
'cos',
'cosh',
'cov_exp_quad',
'crossprod',
'csr_extract_u',
'csr_extract_v',
'csr_extract_w',
'csr_matrix_times_vector',
'csr_to_dense_matrix',
'cumulative_sum',
'determinant',
'diag_matrix',
'diag_post_multiply',
'diag_pre_multiply',
'diagonal',
'digamma',
'dims',
'distance',
'dot_product',
'dot_self',
'eigenvalues_sym',
'eigenvectors_sym',
'erf',
'erfc',
'exp',
'exp2',
'expm1',
'fabs',
'falling_factorial',
'fdim',
'floor',
'fma',
'fmax',
'fmin',
'fmod',
'gamma_p',
'gamma_q',
'generalized_inverse',
'get_imag',
'get_lp',
'get_real',
'head',
'hmm_hidden_state_prob',
'hmm_marginal',
'hypot',
'identity_matrix',
'inc_beta',
'int_step',
'integrate_1d',
'integrate_ode',
'integrate_ode_adams',
'integrate_ode_bdf',
'integrate_ode_rk45',
'inv',
'inv_Phi',
'inv_cloglog',
'inv_logit',
'inv_sqrt',
'inv_square',
'inverse',
'inverse_spd',
'is_inf',
'is_nan',
'lambert_w0',
'lambert_wm1',
'lbeta',
'lchoose',
'ldexp',
'lgamma',
'linspaced_array',
'linspaced_int_array',
'linspaced_row_vector',
'linspaced_vector',
'lmgamma',
'lmultiply',
'log',
'log1m',
'log1m_exp',
'log1m_inv_logit',
'log1p',
'log1p_exp',
'log_determinant',
'log_diff_exp',
'log_falling_factorial',
'log_inv_logit',
'log_inv_logit_diff',
'log_mix',
'log_modified_bessel_first_kind',
'log_rising_factorial',
'log_softmax',
'log_sum_exp',
'logit',
'machine_precision',
'map_rect',
'matrix_exp',
'matrix_exp_multiply',
'matrix_power',
'max',
'mdivide_left_spd',
'mdivide_left_tri_low',
'mdivide_right_spd',
'mdivide_right_tri_low',
'mean',
'min',
'modified_bessel_first_kind',
'modified_bessel_second_kind',
'multiply_log',
'multiply_lower_tri_self_transpose',
'negative_infinity',
'norm',
'not_a_number',
'num_elements',
'ode_adams',
'ode_adams_tol',
'ode_adjoint_tol_ctl',
'ode_bdf',
'ode_bdf_tol',
'ode_ckrk',
'ode_ckrk_tol',
'ode_rk45',
'ode_rk45_tol',
'one_hot_array',
'one_hot_int_array',
'one_hot_row_vector',
'one_hot_vector',
'ones_array',
'ones_int_array',
'ones_row_vector',
'ones_vector',
'owens_t',
'polar',
'positive_infinity',
'pow',
'print',
'prod',
'proj',
'qr_Q',
'qr_R',
'qr_thin_Q',
'qr_thin_R',
'quad_form',
'quad_form_diag',
'quad_form_sym',
'quantile',
'rank',
'reduce_sum',
'reject',
'rep_array',
'rep_matrix',
'rep_row_vector',
'rep_vector',
'reverse',
'rising_factorial',
'round',
'row',
'rows',
'rows_dot_product',
'rows_dot_self',
'scale_matrix_exp_multiply',
'sd',
'segment',
'sin',
'singular_values',
'sinh',
'size',
'softmax',
'sort_asc',
'sort_desc',
'sort_indices_asc',
'sort_indices_desc',
'sqrt',
'square',
'squared_distance',
'step',
'sub_col',
'sub_row',
'sum',
'svd_U',
'svd_V',
'symmetrize_from_lower_tri',
'tail',
'tan',
'tanh',
'target',
'tcrossprod',
'tgamma',
'to_array_1d',
'to_array_2d',
'to_complex',
'to_matrix',
'to_row_vector',
'to_vector',
'trace',
'trace_gen_quad_form',
'trace_quad_form',
'trigamma',
'trunc',
'uniform_simplex',
'variance',
'zeros_array',
'zeros_int_array',
'zeros_row_vector'
];
const DISTRIBUTIONS = [
'bernoulli',
'bernoulli_logit',
'bernoulli_logit_glm',
'beta',
'beta_binomial',
'beta_proportion',
'binomial',
'binomial_logit',
'categorical',
'categorical_logit',
'categorical_logit_glm',
'cauchy',
'chi_square',
'dirichlet',
'discrete_range',
'double_exponential',
'exp_mod_normal',
'exponential',
'frechet',
'gamma',
'gaussian_dlm_obs',
'gumbel',
'hmm_latent',
'hypergeometric',
'inv_chi_square',
'inv_gamma',
'inv_wishart',
'lkj_corr',
'lkj_corr_cholesky',
'logistic',
'lognormal',
'multi_gp',
'multi_gp_cholesky',
'multi_normal',
'multi_normal_cholesky',
'multi_normal_prec',
'multi_student_t',
'multinomial',
'multinomial_logit',
'neg_binomial',
'neg_binomial_2',
'neg_binomial_2_log',
'neg_binomial_2_log_glm',
'normal',
'normal_id_glm',
'ordered_logistic',
'ordered_logistic_glm',
'ordered_probit',
'pareto',
'pareto_type_2',
'poisson',
'poisson_log',
'poisson_log_glm',
'rayleigh',
'scaled_inv_chi_square',
'skew_double_exponential',
'skew_normal',
'std_normal',
'student_t',
'uniform',
'von_mises',
'weibull',
'wiener',
'wishart'
];
const BLOCK_COMMENT = hljs.COMMENT(
/\/\*/,
/\*\//,
{
relevance: 0,
contains: [
{
scope: 'doctag',
match: /@(return|param)/
}
]
}
);
const INCLUDE = {
scope: 'meta',
begin: /#include\b/,
end: /$/,
contains: [
{
match: /[a-z][a-z-._]+/,
scope: 'string'
},
hljs.C_LINE_COMMENT_MODE
]
};
const RANGE_CONSTRAINTS = [
"lower",
"upper",
"offset",
"multiplier"
];
return {
name: 'Stan',
aliases: [ 'stanfuncs' ],
keywords: {
$pattern: hljs.IDENT_RE,
title: BLOCKS,
type: TYPES,
keyword: STATEMENTS,
built_in: FUNCTIONS
},
contains: [
hljs.C_LINE_COMMENT_MODE,
INCLUDE,
hljs.HASH_COMMENT_MODE,
BLOCK_COMMENT,
{
scope: 'built_in',
match: /\s(pi|e|sqrt2|log2|log10)(?=\()/,
relevance: 0
},
{
match: regex.concat(/[<,]\s*/, regex.either(...RANGE_CONSTRAINTS), /\s*=/),
keywords: RANGE_CONSTRAINTS
},
{
scope: 'keyword',
match: /\btarget(?=\s*\+=)/,
},
{
// highlights the 'T' in T[,] for only Stan language distributrions
match: [
/~\s*/,
regex.either(...DISTRIBUTIONS),
/(?:\(\))/,
/\s*T(?=\s*\[)/
],
scope: {
2: "built_in",
4: "keyword"
}
},
{
// highlights distributions that end with special endings
scope: 'built_in',
keywords: DISTRIBUTIONS,
begin: regex.concat(/\w*/, regex.either(...DISTRIBUTIONS), /(_lpdf|_lupdf|_lpmf|_cdf|_lcdf|_lccdf|_qf)(?=\s*[\(.*\)])/)
},
{
// highlights distributions after ~
begin: [
/~/,
/\s*/,
regex.concat(regex.either(...DISTRIBUTIONS), /(?=\s*[\(.*\)])/)
],
scope: { 3: "built_in" }
},
{
// highlights user defined distributions after ~
begin: [
/~/,
/\s*\w+(?=\s*[\(.*\)])/,
'(?!.*/\b(' + regex.either(...DISTRIBUTIONS) + ')\b)'
],
scope: { 2: "title.function" }
},
{
// highlights user defined distributions with special endings
scope: 'title.function',
begin: /\w*(_lpdf|_lupdf|_lpmf|_cdf|_lcdf|_lccdf|_qf)(?=\s*[\(.*\)])/
},
{
scope: 'number',
match: regex.concat(
// Comes from @RunDevelopment accessed 11/29/2021 at
// https://github.com/PrismJS/prism/blob/c53ad2e65b7193ab4f03a1797506a54bbb33d5a2/components/prism-stan.js#L56
// start of big noncapture group which
// 1. gets numbers that are by themselves
// 2. numbers that are separated by _
// 3. numbers that are separted by .
/(?:\b\d+(?:_\d+)*(?:\.(?:\d+(?:_\d+)*)?)?|\B\.\d+(?:_\d+)*)/,
// grabs scientific notation
// grabs complex numbers with i
/(?:[eE][+-]?\d+(?:_\d+)*)?i?(?!\w)/
),
relevance: 0
},
{
scope: 'string',
begin: /"/,
end: /"/
}
]
};
}
module.exports = stan;
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